Attachment 1253790 Details for Bug 1424167 – build.log

build.log

<fdopen> (text/plain), 3.03 MB, created by Fedora Release Engineering on 2017-02-17 16:09:31 UTC

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Creator: Fedora Release Engineering

Created: 2017-02-17 16:09:31 UTC

Size: 3.03 MB

patch

obsolete

>Mock Version: 1.3.3
>Mock Version: 1.3.3
>ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target ppc64 --nodeps /builddir/build/SPECS/python-MDAnalysis.spec'], user='mockbuild'logger=<mockbuild.trace_decorator.getLog object at 0x3fff81d52390>chrootPath='/var/lib/mock/f26-build-7662082-694538/root'printOutput=Falsetimeout=172800gid=425uid=1000shell=Falseenv={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'HOSTNAME': 'mock', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'})
>Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target ppc64 --nodeps /builddir/build/SPECS/python-MDAnalysis.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'HOSTNAME': 'mock', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'} and shell False
>Building target platforms: ppc64
>Building for target ppc64
>Wrote: /builddir/build/SRPMS/python-MDAnalysis-0.14.0-5.fc26.src.rpm
>Child return code was: 0
>ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target ppc64 --nodeps /builddir/build/SPECS/python-MDAnalysis.spec'], user='mockbuild'logger=<mockbuild.trace_decorator.getLog object at 0x3fff81d52390>chrootPath='/var/lib/mock/f26-build-7662082-694538/root'private_network=Truetimeout=172800gid=425uid=1000env={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'HOSTNAME': 'mock', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'}shell=FalseprintOutput=False)
>Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target ppc64 --nodeps /builddir/build/SPECS/python-MDAnalysis.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'HOSTNAME': 'mock', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin'} and shell False
>Building target platforms: ppc64
>Building for target ppc64
>Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.fSPzwD
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd /builddir/build/BUILD
>+ rm -rf MDAnalysis-0.14.0
>+ /usr/bin/gzip -dc /builddir/build/SOURCES/MDAnalysis-0.14.0.tar.gz
>+ /usr/bin/tar -xof -
>+ STATUS=0
>+ '[' 0 -ne 0 ']'
>+ cd MDAnalysis-0.14.0
>+ /usr/bin/gzip -dc /builddir/build/SOURCES/MDAnalysisTests-0.14.0.tar.gz
>+ /usr/bin/tar -xof -
>+ STATUS=0
>+ '[' 0 -ne 0 ']'
>+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
>~/build/BUILD/MDAnalysis-0.14.0/MDAnalysisTests-0.14.0 ~/build/BUILD/MDAnalysis-0.14.0
>Patch #1 (python-MDAnalysis-issue-765.patch):
>+ pushd MDAnalysisTests-0.14.0
>+ echo 'Patch #1 (python-MDAnalysis-issue-765.patch):'
>+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .issue765 --fuzz=0
>patching file MDAnalysisTests/coordinates/test_mol2.py
>patching file MDAnalysisTests/coordinates/test_pdbqt.py
>patching file MDAnalysisTests/coordinates/test_reader_api.py
>patching file MDAnalysisTests/test_nuclinfo.py
>patching file MDAnalysisTests/test_units.py
>patching file MDAnalysisTests/test_velocities_forces.py
>+ popd
>~/build/BUILD/MDAnalysis-0.14.0
>+ rm -r MDAnalysis.egg-info
>+ rm -r MDAnalysisTests-0.14.0/MDAnalysisTests.egg-info
>+ exit 0
>Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.6GK1XC
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd MDAnalysis-0.14.0
>+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64'
>+ /usr/bin/python2 setup.py build '--executable=/usr/bin/python2 -s'
>Attempting to autodetect OpenMP support... Compiler supports OpenMP
>Will not attempt to use Cython.
>running build
>running build_py
>creating build
>creating build/lib.linux-ppc64-2.7
>creating build/lib.linux-ppc64-2.7/MDAnalysis
>copying MDAnalysis/version.py -> build/lib.linux-ppc64-2.7/MDAnalysis
>copying MDAnalysis/KDTree.py -> build/lib.linux-ppc64-2.7/MDAnalysis
>copying MDAnalysis/exceptions.py -> build/lib.linux-ppc64-2.7/MDAnalysis
>copying MDAnalysis/units.py -> build/lib.linux-ppc64-2.7/MDAnalysis
>copying MDAnalysis/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis
>creating build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/base.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/MOL2Parser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/DMSParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/PrimitivePDBParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/PDBParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/DLPolyParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/PSFParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/TOPParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/GROParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/GMSParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/core.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/XYZParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/CRDParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/TPRParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/PDBQTParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/PQRParser.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>copying MDAnalysis/topology/tables.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology
>creating build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/base.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/charmm.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/jmol.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/gromacs.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/pymol.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/vmd.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>copying MDAnalysis/selections/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/selections
>creating build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/base.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/DMS.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/TRJ.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/MOL2.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/PDBQT.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/XDR.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/GMS.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/TRR.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/GRO.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/XYZ.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/DLPoly.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/PDB.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/INPCRD.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/XTC.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/CRD.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/core.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/TRZ.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/DCD.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/PQR.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>copying MDAnalysis/coordinates/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates
>creating build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/util.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/log.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/distances.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/transformations.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/NeighborSearch.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>copying MDAnalysis/lib/mdamath.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib
>creating build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/topologyobjects.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/util.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/parallel.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/log.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/qcprot.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/distances.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/AtomGroup.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/transformations.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/Selection.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/units.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/Timeseries.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>copying MDAnalysis/core/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/core
>creating build/lib.linux-ppc64-2.7/MDAnalysis/tests
>copying MDAnalysis/tests/datafiles.py -> build/lib.linux-ppc64-2.7/MDAnalysis/tests
>copying MDAnalysis/tests/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/tests
>creating build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/psa.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/density.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/base.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/hole.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/align.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/waterdynamics.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/gnm.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/leaflet.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/distances.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/x3dna.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/lineardensity.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/nuclinfo.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/polymer.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/helanal.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/rdf.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/rms.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/contacts.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>copying MDAnalysis/analysis/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis
>creating build/lib.linux-ppc64-2.7/MDAnalysis/migration
>copying MDAnalysis/migration/ten2eleven.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration
>copying MDAnalysis/migration/test_dummy_torsion.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration
>copying MDAnalysis/migration/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration
>copying MDAnalysis/migration/test_dummy_old_MDA_code.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration
>creating build/lib.linux-ppc64-2.7/MDAnalysis/visualization
>copying MDAnalysis/visualization/streamlines.py -> build/lib.linux-ppc64-2.7/MDAnalysis/visualization
>copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.linux-ppc64-2.7/MDAnalysis/visualization
>copying MDAnalysis/visualization/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/visualization
>creating build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr
>copying MDAnalysis/topology/tpr/utils.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr
>copying MDAnalysis/topology/tpr/obj.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr
>copying MDAnalysis/topology/tpr/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr
>copying MDAnalysis/topology/tpr/setting.py -> build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr
>creating build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/pdb
>copying MDAnalysis/coordinates/pdb/extensions.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/pdb
>copying MDAnalysis/coordinates/pdb/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/pdb
>creating build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats
>copying MDAnalysis/lib/formats/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats
>creating build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds
>copying MDAnalysis/analysis/hbonds/hbond_analysis.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds
>copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds
>copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds
>creating build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_writer.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_framenumberingzerobased.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_camelcase.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_agmethods2.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_selectatoms.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_numframes.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_mdaimports.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_torsions.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_agmethods.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_calctorsions.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_agsetterpluralization.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_agcountmethods.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/fix_torsionclasses.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>copying MDAnalysis/migration/fixes/__init__.py -> build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes
>running build_ext
>building 'coordinates._dcdmodule' extension
>creating build/temp.linux-ppc64-2.7
>creating build/temp.linux-ppc64-2.7/MDAnalysis
>creating build/temp.linux-ppc64-2.7/MDAnalysis/coordinates
>creating build/temp.linux-ppc64-2.7/MDAnalysis/coordinates/src
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/coordinates/include -I/usr/include/python2.7 -c MDAnalysis/coordinates/src/dcd.c -o build/temp.linux-ppc64-2.7/MDAnalysis/coordinates/src/dcd.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/coordinates/src/dcd.c:22:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>MDAnalysis/coordinates/src/dcd.c: In function '__reset_dcd_read':
>MDAnalysis/coordinates/src/dcd.c:892:7: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
>   int rc;
>       ^~
>In file included from MDAnalysis/coordinates/src/dcd.c:24:0:
>At top level:
>MDAnalysis/coordinates/include/readdcd.h:626:12: warning: 'jump_to_dcdstep' defined but not used [-Wunused-function]
> static int jump_to_dcdstep(fio_fd fd, int natoms, int nsets, int nfixed, int charmm, int header_size, int step) {
>            ^~~~~~~~~~~~~~~
>In file included from MDAnalysis/coordinates/include/readdcd.h:26:0,
>                 from MDAnalysis/coordinates/src/dcd.c:24:
>MDAnalysis/coordinates/include/fastio.h:450:12: warning: 'fio_write_str' defined but not used [-Wunused-function]
> static int fio_write_str(fio_fd fd, const char *str) {
>            ^~~~~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:446:12: warning: 'fio_read_int32' defined but not used [-Wunused-function]
> static int fio_read_int32(fio_fd fd, int *i) {
>            ^~~~~~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:370:12: warning: 'fio_fclose' defined but not used [-Wunused-function]
> static int fio_fclose(fio_fd fd) {
>            ^~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:351:12: warning: 'fio_open' defined but not used [-Wunused-function]
> static int fio_open(const char *filename, int mode, fio_fd *fd) {
>            ^~~~~~~~
>In file included from MDAnalysis/coordinates/include/readdcd.h:25:0,
>                 from MDAnalysis/coordinates/src/dcd.c:24:
>MDAnalysis/coordinates/include/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^~~~~~~~~~~~~
>MDAnalysis/coordinates/include/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^~~~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/coordinates/src/dcd.o -L/usr/lib64 -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/_dcdmodule.so
>building 'coordinates.dcdtimeseries' extension
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/coordinates/include -I/usr/include/python2.7 -c MDAnalysis/coordinates/dcdtimeseries.c -o build/temp.linux-ppc64-2.7/MDAnalysis/coordinates/dcdtimeseries.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/coordinates/dcdtimeseries.c:259:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>In file included from MDAnalysis/coordinates/dcdtimeseries.c:261:0:
>MDAnalysis/coordinates/include/readdcd.h:758:13: warning: 'close_dcd_read' defined but not used [-Wunused-function]
> static void close_dcd_read(int *indexes, float *fixedcoords) {
>             ^~~~~~~~~~~~~~
>MDAnalysis/coordinates/include/readdcd.h:690:12: warning: 'write_dcdheader' defined but not used [-Wunused-function]
> static int write_dcdheader(fio_fd fd, const char *remarks, int N,
>            ^~~~~~~~~~~~~~~
>MDAnalysis/coordinates/include/readdcd.h:653:12: warning: 'write_dcdstep' defined but not used [-Wunused-function]
> static int write_dcdstep(fio_fd fd, int curframe, int curstep, int N,
>            ^~~~~~~~~~~~~
>MDAnalysis/coordinates/include/readdcd.h:502:12: warning: 'read_dcdstep' defined but not used [-Wunused-function]
> static int read_dcdstep(fio_fd fd, int N, float *X, float *Y, float *Z,
>            ^~~~~~~~~~~~
>In file included from MDAnalysis/coordinates/dcdtimeseries.c:261:0:
>MDAnalysis/coordinates/include/readdcd.h:169:12: warning: 'read_dcdheader' defined but not used [-Wunused-function]
> static int read_dcdheader(fio_fd fd, int *N, int *NSET, int *ISTART,
>            ^~~~~~~~~~~~~~
>In file included from MDAnalysis/coordinates/include/readdcd.h:26:0,
>                 from MDAnalysis/coordinates/dcdtimeseries.c:261:
>MDAnalysis/coordinates/include/fastio.h:450:12: warning: 'fio_write_str' defined but not used [-Wunused-function]
> static int fio_write_str(fio_fd fd, const char *str) {
>            ^~~~~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:446:12: warning: 'fio_read_int32' defined but not used [-Wunused-function]
> static int fio_read_int32(fio_fd fd, int *i) {
>            ^~~~~~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:433:19: warning: 'fio_ftell' defined but not used [-Wunused-function]
> static fio_size_t fio_ftell(fio_fd fd) {
>                   ^~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:370:12: warning: 'fio_fclose' defined but not used [-Wunused-function]
> static int fio_fclose(fio_fd fd) {
>            ^~~~~~~~~~
>MDAnalysis/coordinates/include/fastio.h:351:12: warning: 'fio_open' defined but not used [-Wunused-function]
> static int fio_open(const char *filename, int mode, fio_fd *fd) {
>            ^~~~~~~~
>In file included from MDAnalysis/coordinates/include/readdcd.h:25:0,
>                 from MDAnalysis/coordinates/dcdtimeseries.c:261:
>MDAnalysis/coordinates/include/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^~~~~~~~~~~~~
>MDAnalysis/coordinates/include/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^~~~~~~~~~~~~~~
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/coordinates/dcdtimeseries.c:259:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1448:1: warning: '_import_array' defined but not used [-Wunused-function]
> _import_array(void)
> ^~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/coordinates/dcdtimeseries.o -L/usr/lib64 -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/dcdtimeseries.so
>building 'lib.c_distances' extension
>creating build/temp.linux-ppc64-2.7/MDAnalysis/lib
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/include -I/usr/include/python2.7 -c MDAnalysis/lib/c_distances.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/c_distances.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/c_distances.c:261:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/c_distances.c:261:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1448:1: warning: '_import_array' defined but not used [-Wunused-function]
> _import_array(void)
> ^~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/c_distances.o -L/usr/lib64 -lm -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/c_distances.so
>building 'lib.c_distances_openmp' extension
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -DPARALLEL -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/include -I/usr/include/python2.7 -c MDAnalysis/lib/c_distances_openmp.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/c_distances_openmp.o -fopenmp
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/c_distances_openmp.c:274:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/c_distances_openmp.c:274:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1448:1: warning: '_import_array' defined but not used [-Wunused-function]
> _import_array(void)
> ^~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/c_distances_openmp.o -L/usr/lib64 -lm -lgomp -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/c_distances_openmp.so -fopenmp
>building 'lib.qcprot' extension
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c MDAnalysis/lib/qcprot.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/qcprot.o -O3 -ffast-math
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/qcprot.c:260:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/qcprot.c:260:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1448:1: warning: '_import_array' defined but not used [-Wunused-function]
> _import_array(void)
> ^~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/qcprot.o -L/usr/lib64 -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/qcprot.so
>building 'lib._transformations' extension
>creating build/temp.linux-ppc64-2.7/MDAnalysis/lib/src
>creating build/temp.linux-ppc64-2.7/MDAnalysis/lib/src/transformations
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c MDAnalysis/lib/src/transformations/transformations.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/src/transformations/transformations.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/src/transformations/transformations.c:73:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>MDAnalysis/lib/src/transformations/transformations.c: In function 'py_superimposition_matrix':
>MDAnalysis/lib/src/transformations/transformations.c:1845:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                 #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:1962:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                     #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:1986:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                     #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c: In function 'py_vector_norm':
>MDAnalysis/lib/src/transformations/transformations.c:3427:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>             #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:3508:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                 #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c: In function 'py_unit_vector':
>MDAnalysis/lib/src/transformations/transformations.c:3610:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>             #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:3615:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>             #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:3679:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                 #pragma vector always
> 
>MDAnalysis/lib/src/transformations/transformations.c:3684:0: warning: ignoring #pragma vector always [-Wunknown-pragmas]
>                 #pragma vector always
> 
>At top level:
>MDAnalysis/lib/src/transformations/transformations.c:910:1: warning: 'PyConverter_DoubleVector4Copy' defined but not used [-Wunused-function]
> PyConverter_DoubleVector4Copy(
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>MDAnalysis/lib/src/transformations/transformations.c:804:1: warning: 'PyConverter_DoubleArrayOrNone' defined but not used [-Wunused-function]
> PyConverter_DoubleArrayOrNone(
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>MDAnalysis/lib/src/transformations/transformations.c:774:1: warning: 'PyConverter_DoubleArray' defined but not used [-Wunused-function]
> PyConverter_DoubleArray(
> ^~~~~~~~~~~~~~~~~~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/src/transformations/transformations.o -L/usr/lib64 -lm -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/_transformations.so
>building 'lib.formats.libmdaxdr' extension
>creating build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats
>creating build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/libmdaxdr.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/libmdaxdr.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/formats/libmdaxdr.c:277:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>In file included from MDAnalysis/lib/formats/libmdaxdr.c:280:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/libmdaxdr.c:281:0:
>MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43:0,
>                 from MDAnalysis/lib/formats/libmdaxdr.c:281:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/libmdaxdr.c:282:0:
>MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/src/xdrfile.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile.o
>MDAnalysis/lib/formats/src/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/xdrfile.c:59:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>MDAnalysis/lib/formats/src/xdrfile.c: In function 'xdrfile_decompress_coord_float':
>MDAnalysis/lib/formats/src/xdrfile.c:791:25: warning: variable 'larger' set but not used [-Wunused-but-set-variable]
>  int smallnum, smaller, larger, i, is_smaller, run;
>                         ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c:788:16: warning: variable 'minidx' set but not used [-Wunused-but-set-variable]
>  int smallidx, minidx, maxidx;
>                ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c: In function 'xdrfile_compress_coord_float':
>MDAnalysis/lib/formats/src/xdrfile.c:998:6: warning: variable 'errval' set but not used [-Wunused-but-set-variable]
>  int errval=1;
>      ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c: In function 'xdrfile_decompress_coord_double':
>MDAnalysis/lib/formats/src/xdrfile.c:1287:25: warning: variable 'larger' set but not used [-Wunused-but-set-variable]
>  int smallnum, smaller, larger, i, is_smaller, run;
>                         ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c:1284:16: warning: variable 'minidx' set but not used [-Wunused-but-set-variable]
>  int smallidx, minidx, maxidx;
>                ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c: In function 'xdrfile_compress_coord_double':
>MDAnalysis/lib/formats/src/xdrfile.c:1491:6: warning: variable 'errval' set but not used [-Wunused-but-set-variable]
>  int errval=1;
>      ^~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c: At top level:
>MDAnalysis/lib/formats/src/xdrfile.c:2532:3: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types]
>   xdrstdio_getpos,  /* get offset in the stream */
>   ^~~~~~~~~~~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c:2532:3: note: (near initialization for 'xdrstdio_ops.x_getpostn')
>MDAnalysis/lib/formats/src/xdrfile.c:2533:3: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types]
>   xdrstdio_setpos,  /* set offset in the stream */
>   ^~~~~~~~~~~~~~~
>MDAnalysis/lib/formats/src/xdrfile.c:2533:3: note: (near initialization for 'xdrstdio_ops.x_setpostn')
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/src/xdrfile_xtc.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile_xtc.o
>In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:32:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:33:0:
>MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43:0,
>                 from MDAnalysis/lib/formats/src/xdrfile_xtc.c:33:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/src/xdrfile_trr.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile_trr.o
>MDAnalysis/lib/formats/src/xdrfile_trr.c:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:44:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:45:0:
>MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/include/xdrfile_trr.h:42:0,
>                 from MDAnalysis/lib/formats/src/xdrfile_trr.c:45:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>MDAnalysis/lib/formats/src/xdrfile_trr.c: In function 'write_trr':
>MDAnalysis/lib/formats/src/xdrfile_trr.c:414:10: warning: 'plcholder' is used uninitialized in this function [-Wuninitialized]
>   return do_trn(xd, 0, &step, &t, &lambda, box, &natoms, x, v, f, plcholder);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/src/trr_seek.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/trr_seek.o
>In file included from MDAnalysis/lib/formats/src/trr_seek.c:21:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/trr_seek.c:22:0:
>MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/include/xdrfile_trr.h:42:0,
>                 from MDAnalysis/lib/formats/src/trr_seek.c:22:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>MDAnalysis/lib/formats/src/trr_seek.c: In function 'read_trr_n_frames':
>MDAnalysis/lib/formats/src/trr_seek.c:30:27: warning: unused variable 'totalframebytes' [-Wunused-variable]
>   int result, framebytes, totalframebytes;
>                           ^~~~~~~~~~~~~~~
>MDAnalysis/lib/formats/src/trr_seek.c:29:15: warning: unused variable 'lambda' [-Wunused-variable]
>   float time, lambda;
>               ^~~~~~
>MDAnalysis/lib/formats/src/trr_seek.c:29:9: warning: unused variable 'time' [-Wunused-variable]
>   float time, lambda;
>         ^~~~
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/lib64/python2.7/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/lib/formats -I/usr/include/python2.7 -c MDAnalysis/lib/formats/src/xtc_seek.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xtc_seek.o
>In file included from MDAnalysis/lib/formats/src/xtc_seek.c:17:0:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/src/xtc_seek.c:18:0:
>MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43:0,
>                 from MDAnalysis/lib/formats/src/xtc_seek.c:18:
>MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment]
>  /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*-
>   
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/libmdaxdr.o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile.o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile_xtc.o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xdrfile_trr.o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/trr_seek.o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/src/xtc_seek.o -L/usr/lib64 -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats/libmdaxdr.so
>building 'lib.formats.cython_util' extension
>gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -D_GNU_SOURCE -fPIC -fwrapv -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -fPIC -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c MDAnalysis/lib/formats/cython_util.c -o build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/cython_util.o
>In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1788:0,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
>                 from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
>                 from MDAnalysis/lib/formats/cython_util.c:256:
>/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
> #warning "Using deprecated NumPy API, disable it by " \
>  ^~~~~~~
>gcc -pthread -shared -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 build/temp.linux-ppc64-2.7/MDAnalysis/lib/formats/cython_util.o -L/usr/lib64 -lpython2.7 -o build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats/cython_util.so
>+ sleep 1
>+ pushd MDAnalysisTests-0.14.0
>~/build/BUILD/MDAnalysis-0.14.0/MDAnalysisTests-0.14.0 ~/build/BUILD/MDAnalysis-0.14.0
>+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64'
>+ /usr/bin/python2 setup.py build '--executable=/usr/bin/python2 -s'
>running build
>running build_py
>creating build
>creating build/lib
>creating build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_transformations.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_streamio.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_meta.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_log.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_altloc.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_datafiles.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_distances.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_nuclinfo.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_imports.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_topology.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_atomselections.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_qcprot.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_velocities_forces.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_deprecated.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_persistence.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_atomgroup.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_tprparser.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_selections.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/datafiles.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_units.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/__init__.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_modelling.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_lammpsdata.py -> build/lib/MDAnalysisTests
>copying MDAnalysisTests/test_util.py -> build/lib/MDAnalysisTests
>creating build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/base.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_dcd.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_dlpoly.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_coordinates.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_trz.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_dms.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_pdb.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_timestep_api.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/reference.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_trj.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_xdr.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_xyz.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_gms.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_gro.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_mol2.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_pdbqt.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_reader_api.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_pqr.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/__init__.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_lammps.py -> build/lib/MDAnalysisTests/coordinates
>copying MDAnalysisTests/coordinates/test_netcdf.py -> build/lib/MDAnalysisTests/coordinates
>creating build/lib/MDAnalysisTests/plugins
>copying MDAnalysisTests/plugins/cleanup.py -> build/lib/MDAnalysisTests/plugins
>copying MDAnalysisTests/plugins/capture_err.py -> build/lib/MDAnalysisTests/plugins
>copying MDAnalysisTests/plugins/knownfailure.py -> build/lib/MDAnalysisTests/plugins
>copying MDAnalysisTests/plugins/memleak.py -> build/lib/MDAnalysisTests/plugins
>copying MDAnalysisTests/plugins/__init__.py -> build/lib/MDAnalysisTests/plugins
>creating build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_helanal.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_lineardensity.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_waterdynamics.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_density.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_distances.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_rms.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_align.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_rdf.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_leaflet.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_base.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_hbonds.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_hole.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_psa.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/__init__.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_contacts.py -> build/lib/MDAnalysisTests/analysis
>copying MDAnalysisTests/analysis/test_persistencelength.py -> build/lib/MDAnalysisTests/analysis
>creating build/lib/MDAnalysisTests/formats
>copying MDAnalysisTests/formats/test_libmdaxdr.py -> build/lib/MDAnalysisTests/formats
>copying MDAnalysisTests/formats/__init__.py -> build/lib/MDAnalysisTests/formats
>creating build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_notop.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/trz_psf.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_notop_BAD.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/watdyn.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/tip125_tric_C36.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/nosegid.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/2r9r-1b.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/namd_cgenff.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/SiN_tric_namd.psf -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_dims2.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/watdyn.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/tip125_tric_C36.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/SiN_tric_namd.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/empty.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_dims.dcd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_closed.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/align.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/1grm_single.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/conect_parsing.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/4E43.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/nucl_res.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/nmr_neopetrosiamide.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/cobrotoxin.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/incomplete.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/A6PA6_alpha.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/unordered_res.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/xl_serial.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_open.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/1hvr.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/pdbqt_querypdb.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/1k5i.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/cobrotoxin_dry_neutral_0.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/namd_cgenff.pdb -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/5digitResid.pdb -> build/lib/MDAnalysisTests/data
>creating build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_5.0.5.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_5.0.2.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_5.1.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/ab42_gmx_4.6.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/drew_gmx_4.5.5.double.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.7.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/ab42_gmx_4.6.1.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.5.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.2.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.5.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.4.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_5.0.4.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.4.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.1.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.2.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.5.3.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.3.tpr -> build/lib/MDAnalysisTests/data/tprs
>copying MDAnalysisTests/data/tprs/2lyz_gmx_4.0.6.tpr -> build/lib/MDAnalysisTests/data/tprs
>creating build/lib/MDAnalysisTests/data/tprs/all_bonded
>copying MDAnalysisTests/data/tprs/all_bonded/dummy_5.1.tpr -> build/lib/MDAnalysisTests/data/tprs/all_bonded
>copying MDAnalysisTests/data/tprs/all_bonded/dummy.gro -> build/lib/MDAnalysisTests/data/tprs/all_bonded
>copying MDAnalysisTests/data/tprs/all_bonded/dummy.top -> build/lib/MDAnalysisTests/data/tprs/all_bonded
>copying MDAnalysisTests/data/tprs/all_bonded/dummy.mdp -> build/lib/MDAnalysisTests/data/tprs/all_bonded
>copying MDAnalysisTests/data/cobrotoxin.tpr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa.tpr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/make_whole.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/plength.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/two_water_gro_widebox.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/sample_velocity_file.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/two_water_gro.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/dppc_vesicle_hg.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/martini_dppc_chol_bilayer.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/two_water_gro_nonames.gro -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa.xtc -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/gram_A_identical_frames.xtc -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/xtc_test_only_single_frame_10_atoms.xtc -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/xtc_test_only_10_frame_10_atoms.xtc -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/cobrotoxin.xtc -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/cobrotoxin.trr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/trr_test_only_single_frame_10_atoms.trr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/trr_test_only_10_frame_10_atoms.trr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa.trr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_oplsaa_CA_rmsf.npy -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_open.crd -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/2r9r-1b.xyz -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/five.xyz -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/mini.xyz -> build/lib/MDAnalysisTests/data
>creating build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/capped-ala.mdcrd.bz2 -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/anti_md1.mdcrd.bz2 -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/tz2.truncoct.parm7.bz2 -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/ache.mdcrd.bz2 -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/bala.prmtop -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/ache.prmtop -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/capped-ala.prmtop -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/anti.top -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/posfor.top -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/bala.trj -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/ache.mdcrd -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/posfor.ncdf -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/bala.ncdf -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/tz2.truncoct.nc -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/Amber/test.inpcrd -> build/lib/MDAnalysisTests/data/Amber
>copying MDAnalysisTests/data/adk_open.pqr -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/pdbqt_inputpdbqt.pdbqt -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/C12x64.xml.bz2 -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/2r9r-1b.xyz.bz2 -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/bigbox.gro.bz2 -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/cobrotoxin_protein_forces.xvg.bz2 -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/test.fasta -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/helanal_bending_matrix_AdK_DIMS_H8.dat -> build/lib/MDAnalysisTests/data
>copying MDAnalysisTests/data/adk_closed.dms -> build/lib/MDAnalysisTests/data
>creating build/lib/MDAnalysisTests/data/merge
>creating build/lib/MDAnalysisTests/data/merge/2zmm
>copying MDAnalysisTests/data/merge/2zmm/protein.pdb -> build/lib/MDAnalysisTests/data/merge/2zmm
>copying MDAnalysisTests/data/merge/2zmm/ligand.pdb -> build/lib/MDAnalysisTests/data/merge/2zmm
>copying MDAnalysisTests/data/merge/2zmm/water.pdb -> build/lib/MDAnalysisTests/data/merge/2zmm
>copying MDAnalysisTests/data/trzfile.trz -> build/lib/MDAnalysisTests/data
>creating build/lib/MDAnalysisTests/data/mol2
>copying MDAnalysisTests/data/mol2/Molecules.mol2 -> build/lib/MDAnalysisTests/data/mol2
>copying MDAnalysisTests/data/mol2/Molecule.mol2 -> build/lib/MDAnalysisTests/data/mol2
>copying MDAnalysisTests/data/mol2/BrokenMolecule.mol2 -> build/lib/MDAnalysisTests/data/mol2
>creating build/lib/MDAnalysisTests/data/capping
>copying MDAnalysisTests/data/capping/aaqaa.gro -> build/lib/MDAnalysisTests/data/capping
>copying MDAnalysisTests/data/capping/maestro_aaqaa_capped.pdb -> build/lib/MDAnalysisTests/data/capping
>copying MDAnalysisTests/data/capping/nma.pdb -> build/lib/MDAnalysisTests/data/capping
>copying MDAnalysisTests/data/capping/ace.pdb -> build/lib/MDAnalysisTests/data/capping
>creating build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/mini.data -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/hydrogen-class1.data -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/cnt-hexagonal-class1.data -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/datatest.data -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/ifabp_apo_100mM.data.bz2 -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/hydrogen-class1.data2 -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/cnt-hexagonal-class1.data2 -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/ifabp_apo_100mM.dcd -> build/lib/MDAnalysisTests/data/lammps
>copying MDAnalysisTests/data/lammps/datatest.trz -> build/lib/MDAnalysisTests/data/lammps
>creating build/lib/MDAnalysisTests/data/gms
>copying MDAnalysisTests/data/gms/symopt.gms -> build/lib/MDAnalysisTests/data/gms
>copying MDAnalysisTests/data/gms/surf2wat.gms -> build/lib/MDAnalysisTests/data/gms
>copying MDAnalysisTests/data/gms/c1opt.gms.gz -> build/lib/MDAnalysisTests/data/gms
>creating build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/CONFIG_order -> build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/CONFIG_minimal -> build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/CONFIG -> build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/HISTORY_minimal -> build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/HISTORY -> build/lib/MDAnalysisTests/data/dlpoly
>copying MDAnalysisTests/data/dlpoly/HISTORY_order -> build/lib/MDAnalysisTests/data/dlpoly
>creating build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/test_topology.pdb -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/test.xyz -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/test.trr -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/test.xtc -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/README.md -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/create_data.py -> build/lib/MDAnalysisTests/data/coordinates
>copying MDAnalysisTests/data/coordinates/test.xyz.bz2 -> build/lib/MDAnalysisTests/data/coordinates
>+ sleep 1
>~/build/BUILD/MDAnalysis-0.14.0
>+ popd
>+ mkdir -p build/sphinx/html
>+ unzip /builddir/build/SOURCES/Documentation.zip -d build/sphinx/html
>Archive:  /builddir/build/SOURCES/Documentation.zip
>   creating: build/sphinx/html/documentation_pages/
>   creating: build/sphinx/html/documentation_pages/visualization/
>  inflating: build/sphinx/html/documentation_pages/visualization/streamlines_3D.html  
>  inflating: build/sphinx/html/documentation_pages/visualization/streamlines.html  
>  inflating: build/sphinx/html/documentation_pages/version.html  
>  inflating: build/sphinx/html/documentation_pages/lib_modules.html  
>  inflating: build/sphinx/html/documentation_pages/references.html  
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>  inflating: build/sphinx/html/documentation_pages/units.html  
>   creating: build/sphinx/html/documentation_pages/coordinates/
>  inflating: build/sphinx/html/documentation_pages/coordinates/base.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/MOL2.html  
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>  inflating: build/sphinx/html/documentation_pages/coordinates/PDBQT.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/PQR.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/TRJ.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/TRZ.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/DLPoly.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/LAMMPS.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/DCD.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/DMS.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/pdbextensions.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/core.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/PDB.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/GMS.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/INPCRD.html  
>   creating: build/sphinx/html/documentation_pages/coordinates/xdrfile/
>  inflating: build/sphinx/html/documentation_pages/coordinates/xdrfile/TRR.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/xdrfile/core.html  
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>  inflating: build/sphinx/html/documentation_pages/coordinates/xdrfile/XTC.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/xdrfile/libxdrfile2.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/xdrfile.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/XTC.html  
>  inflating: build/sphinx/html/documentation_pages/coordinates/init.html  
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>  inflating: build/sphinx/html/documentation_pages/coordinates/GRO.html  
>  inflating: build/sphinx/html/documentation_pages/exceptions.html  
>   creating: build/sphinx/html/documentation_pages/core/
>  inflating: build/sphinx/html/documentation_pages/core/AtomGroup.html  
>  inflating: build/sphinx/html/documentation_pages/core/Timeseries.html  
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>  inflating: build/sphinx/html/documentation_pages/core/Selection.html  
>  inflating: build/sphinx/html/documentation_pages/core/init.html  
>   creating: build/sphinx/html/documentation_pages/lib/
>  inflating: build/sphinx/html/documentation_pages/lib/qcprot.html  
>  inflating: build/sphinx/html/documentation_pages/lib/c_distances_openmp.html  
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>  inflating: build/sphinx/html/documentation_pages/lib/c_distances.html  
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>  inflating: build/sphinx/html/documentation_pages/lib/NeighborSearch.html  
>  inflating: build/sphinx/html/documentation_pages/lib/distances.html  
>  inflating: build/sphinx/html/documentation_pages/lib/mdamath.html  
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>  inflating: build/sphinx/html/documentation_pages/overview.html  
>   creating: build/sphinx/html/documentation_pages/selections/
>  inflating: build/sphinx/html/documentation_pages/selections/base.html  
>  inflating: build/sphinx/html/documentation_pages/selections/pymol.html  
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>   creating: build/sphinx/html/documentation_pages/topology/
>  inflating: build/sphinx/html/documentation_pages/topology/base.html  
>  inflating: build/sphinx/html/documentation_pages/topology/TOPParser.html  
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>  inflating: build/sphinx/html/documentation_pages/topology/PQRParser.html  
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>  inflating: build/sphinx/html/documentation_pages/topology/GROParser.html  
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>  inflating: build/sphinx/html/documentation_pages/topology/PDBParser.html  
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>  inflating: build/sphinx/html/documentation_pages/topology/GMSParser.html  
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>  inflating: build/sphinx/html/documentation_pages/topology/ExtendedPDBParser.html  
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>   creating: build/sphinx/html/documentation_pages/analysis/
>  inflating: build/sphinx/html/documentation_pages/analysis/base.html  
>  inflating: build/sphinx/html/documentation_pages/analysis/nuclinfo.html  
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>  inflating: build/sphinx/html/documentation_pages/analysis/gnm.html  
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>   creating: build/sphinx/html/_images/
>  inflating: build/sphinx/html/_images/test_streamplot_3D.png  
>  inflating: build/sphinx/html/_images/testing_streamline.png  
>  inflating: build/sphinx/html/index.html  
>   creating: build/sphinx/html/_modules/
>   creating: build/sphinx/html/_modules/numpy/
>   creating: build/sphinx/html/_modules/numpy/lib/
>  inflating: build/sphinx/html/_modules/numpy/lib/utils.html  
>  inflating: build/sphinx/html/_modules/index.html  
>  inflating: build/sphinx/html/_modules/functools.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/
>   creating: build/sphinx/html/_modules/MDAnalysis/visualization/
>  inflating: build/sphinx/html/_modules/MDAnalysis/visualization/streamlines_3D.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/visualization/streamlines.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/units.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/coordinates/
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/base.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/coordinates/pdb/
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/pdb/extensions.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/PDBQT.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/PQR.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/TRJ.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/TRZ.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/DLPoly.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/LAMMPS.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/DCD.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/DMS.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/core.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/PDB.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/CRD.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/XYZ.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/coordinates/GRO.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/exceptions.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/core/
>  inflating: build/sphinx/html/_modules/MDAnalysis/core/AtomGroup.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/core/__init__.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/core/Timeseries.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/core/topologyobjects.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/core/Selection.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/lib/
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/log.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/transformations.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/NeighborSearch.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/distances.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/mdamath.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/lib/util.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/selections/
>  inflating: build/sphinx/html/_modules/MDAnalysis/selections/base.html  
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>  inflating: build/sphinx/html/_modules/MDAnalysis/selections/vmd.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/topology/
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/base.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/TOPParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/MOL2Parser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/PDBQTParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/LAMMPSParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/TPRParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/PSFParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/XYZParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/PQRParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/GROParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/tables.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/core.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/PrimitivePDBParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/DMSParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/PDBParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/CRDParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/GMSParser.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/ExtendedPDBParser.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/topology/tpr/
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/tpr/utils.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/tpr/obj.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/topology/HoomdXMLParser.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/analysis/
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/nuclinfo.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/leaflet.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/contacts.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/hole.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/waterdynamics.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/rms.html  
>   creating: build/sphinx/html/_modules/MDAnalysis/analysis/hbonds/
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/hbonds/hbond_autocorrel.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/hbonds/hbond_analysis.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/helanal.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/distances.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/density.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/gnm.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/rdf.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/x3dna.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/align.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/polymer.html  
>  inflating: build/sphinx/html/_modules/MDAnalysis/analysis/psa.html  
> extracting: build/sphinx/html/objects.inv  
>  inflating: build/sphinx/html/py-modindex.html  
>  inflating: build/sphinx/html/search.html  
>  inflating: build/sphinx/html/searchindex.js  
>   creating: build/sphinx/html/_sources/
>   creating: build/sphinx/html/_sources/documentation_pages/
>   creating: build/sphinx/html/_sources/documentation_pages/visualization/
>  inflating: build/sphinx/html/_sources/documentation_pages/visualization/streamlines.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/visualization/streamlines_3D.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections_modules.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/overview.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/coordinates/
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/GRO.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/PDB.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/MOL2.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/GMS.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/TRJ.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/coordinates/core.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/PQR.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/INPCRD.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/init.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/XYZ.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/base.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/LAMMPS.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/CRD.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/TRZ.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/PDBQT.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/statno.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/libxdrfile2.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/core.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/XTC.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile/TRR.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/XTC.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/DMS.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/pdbextensions.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/coordinates/xdrfile.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/DCD.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/TRR.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/coordinates/DLPoly.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/lib_modules.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/coordinates_modules.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/topology_modules.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/core/
> extracting: build/sphinx/html/_sources/documentation_pages/core/Selection.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/core/AtomGroup.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/core/topologyobjects.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/core/init.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/core/Timeseries.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/lib/
> extracting: build/sphinx/html/_sources/documentation_pages/lib/mdamath.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/log.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/transformations.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/qcprot.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/util.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/c_distances.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/lib/distances.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/c_distances_openmp.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/lib/NeighborSearch.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/version.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/selections/
>  inflating: build/sphinx/html/_sources/documentation_pages/selections/gromacs.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections/charmm.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/selections/base.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections/jmol.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections/vmd.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections/pymol.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/core_modules.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/topology/
> extracting: build/sphinx/html/_sources/documentation_pages/topology/TOPParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/PQRParser.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/topology/tpr_util.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/LAMMPSParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/PDBParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/DLPolyParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/PSFParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/GROParser.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/topology/core.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/tables.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/DMSParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/GMSParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/init.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/HoomdXMLParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/base.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/TPRParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/ExtendedPDBParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/CRDParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/MOL2Parser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/PDBQTParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/PrimitivePDBParser.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/topology/XYZParser.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/visualization_modules.txt  
>   creating: build/sphinx/html/_sources/documentation_pages/analysis/
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/psa.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/helanal.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/contacts.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/rms.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/waterdynamics.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/nuclinfo.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/x3dna.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/density.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/leaflet.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/base.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/polymer.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/align.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/hbond_autocorrel.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/distances.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/hole.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/hbond_analysis.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/rdf.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/lineardensity.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis/gnm.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/analysis_modules.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/units.txt  
> extracting: build/sphinx/html/_sources/documentation_pages/exceptions.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/selections.txt  
>  inflating: build/sphinx/html/_sources/documentation_pages/references.txt  
>  inflating: build/sphinx/html/_sources/index.txt  
>   creating: build/sphinx/html/_static/
>  inflating: build/sphinx/html/_static/contents.png  
>  inflating: build/sphinx/html/_static/mdanalysis-logo-200x150.png  
> extracting: build/sphinx/html/_static/comment.png  
>  inflating: build/sphinx/html/_static/underscore.js  
>  inflating: build/sphinx/html/_static/sphinxdoc.css  
>  inflating: build/sphinx/html/_static/plus.png  
>  inflating: build/sphinx/html/_static/ajax-loader.gif  
>  inflating: build/sphinx/html/_static/minus.png  
>  inflating: build/sphinx/html/_static/up-pressed.png  
>  inflating: build/sphinx/html/_static/down-pressed.png  
>  inflating: build/sphinx/html/_static/jquery.js  
>  inflating: build/sphinx/html/_static/underscore-1.3.1.js  
>  inflating: build/sphinx/html/_static/down.png  
> extracting: build/sphinx/html/_static/comment-close.png  
> extracting: build/sphinx/html/_static/comment-bright.png  
>  inflating: build/sphinx/html/_static/opensearch.xml  
>  inflating: build/sphinx/html/_static/pygments.css  
>  inflating: build/sphinx/html/_static/mdanalysis-logo.ico  
>  inflating: build/sphinx/html/_static/navigation.png  
>  inflating: build/sphinx/html/_static/basic.css  
>  inflating: build/sphinx/html/_static/up.png  
>  inflating: build/sphinx/html/_static/doctools.js  
>  inflating: build/sphinx/html/_static/jquery-1.11.1.js  
>  inflating: build/sphinx/html/_static/websupport.js  
>  inflating: build/sphinx/html/_static/file.png  
>  inflating: build/sphinx/html/_static/searchtools.js  
>+ xargs chmod 755
>+ find build/sphinx/html -type d
>+ exit 0
>Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.6rHphR
>+ umask 022
>+ cd /builddir/build/BUILD
>+ '[' /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64 '!=' / ']'
>+ rm -rf /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64
>++ dirname /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64
>+ mkdir -p /builddir/build/BUILDROOT
>+ mkdir /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64
>+ cd MDAnalysis-0.14.0
>+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64'
>+ /usr/bin/python2 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64
>Attempting to autodetect OpenMP support... Compiler supports OpenMP
>Will not attempt to use Cython.
>running install
>running install_lib
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/version.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/MOL2Parser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/ExtendedPDBParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/DMSParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/LAMMPSParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/PrimitivePDBParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/PDBParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/HoomdXMLParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/DLPolyParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/PSFParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/TOPParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/GROParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/GMSParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/core.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/XYZParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr/utils.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr/obj.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/tpr/setting.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/CRDParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/TPRParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/PDBQTParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/PQRParser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/topology/tables.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology
>copying build/lib.linux-ppc64-2.7/MDAnalysis/KDTree.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/charmm.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/jmol.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/gromacs.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/pymol.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/vmd.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/selections/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections
>copying build/lib.linux-ppc64-2.7/MDAnalysis/exceptions.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/DMS.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/TRJ.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/MOL2.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/PDBQT.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/XDR.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/GMS.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/TRR.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/GRO.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/XYZ.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/DLPoly.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/PDB.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/INPCRD.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/_dcdmodule.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/LAMMPS.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/XTC.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/CRD.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/core.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/TRZ.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/DCD.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/PQR.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/pdb
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/pdb/extensions.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/pdb
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/pdb/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/pdb
>copying build/lib.linux-ppc64-2.7/MDAnalysis/coordinates/dcdtimeseries.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates
>copying build/lib.linux-ppc64-2.7/MDAnalysis/units.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/util.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/c_distances.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/_transformations.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/log.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/distances.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/transformations.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/NeighborSearch.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/c_distances_openmp.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/qcprot.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/mdamath.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats/cython_util.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats/libmdaxdr.so -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats
>copying build/lib.linux-ppc64-2.7/MDAnalysis/lib/formats/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/topologyobjects.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/util.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/parallel.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/log.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/qcprot.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/distances.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/AtomGroup.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/transformations.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/Selection.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/units.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/Timeseries.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>copying build/lib.linux-ppc64-2.7/MDAnalysis/core/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/tests
>copying build/lib.linux-ppc64-2.7/MDAnalysis/tests/datafiles.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/tests
>copying build/lib.linux-ppc64-2.7/MDAnalysis/tests/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/tests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/psa.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/density.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hole.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/align.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/waterdynamics.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/gnm.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/leaflet.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds/hbond_analysis.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/hbonds/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/distances.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/x3dna.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/lineardensity.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/nuclinfo.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/polymer.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/helanal.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/rdf.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/rms.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/contacts.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>copying build/lib.linux-ppc64-2.7/MDAnalysis/analysis/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_writer.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_framenumberingzerobased.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_camelcase.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_agmethods2.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_selectatoms.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_numframes.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_mdaimports.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_torsions.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_agmethods.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_calctorsions.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_agsetterpluralization.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_agcountmethods.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/fix_torsionclasses.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/fixes/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/ten2eleven.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/test_dummy_torsion.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration
>copying build/lib.linux-ppc64-2.7/MDAnalysis/migration/test_dummy_old_MDA_code.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration
>copying build/lib.linux-ppc64-2.7/MDAnalysis/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization
>copying build/lib.linux-ppc64-2.7/MDAnalysis/visualization/streamlines.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization
>copying build/lib.linux-ppc64-2.7/MDAnalysis/visualization/streamlines_3D.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization
>copying build/lib.linux-ppc64-2.7/MDAnalysis/visualization/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/version.py to version.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/base.py to base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/MOL2Parser.py to MOL2Parser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/ExtendedPDBParser.py to ExtendedPDBParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/DMSParser.py to DMSParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/LAMMPSParser.py to LAMMPSParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/PrimitivePDBParser.py to PrimitivePDBParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/PDBParser.py to PDBParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/HoomdXMLParser.py to HoomdXMLParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/DLPolyParser.py to DLPolyParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/PSFParser.py to PSFParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/TOPParser.py to TOPParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/GROParser.py to GROParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/GMSParser.py to GMSParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/core.py to core.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/XYZParser.py to XYZParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr/utils.py to utils.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr/obj.py to obj.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tpr/setting.py to setting.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/CRDParser.py to CRDParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/TPRParser.py to TPRParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/PDBQTParser.py to PDBQTParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/PQRParser.py to PQRParser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/topology/tables.py to tables.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/KDTree.py to KDTree.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/base.py to base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/charmm.py to charmm.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/jmol.py to jmol.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/gromacs.py to gromacs.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/pymol.py to pymol.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/vmd.py to vmd.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/selections/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/exceptions.py to exceptions.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/base.py to base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/DMS.py to DMS.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRJ.py to TRJ.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/MOL2.py to MOL2.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/PDBQT.py to PDBQT.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/XDR.py to XDR.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/GMS.py to GMS.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRR.py to TRR.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/GRO.py to GRO.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/XYZ.py to XYZ.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/DLPoly.py to DLPoly.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/PDB.py to PDB.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/INPCRD.py to INPCRD.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/LAMMPS.py to LAMMPS.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/XTC.py to XTC.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/CRD.py to CRD.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/core.py to core.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py to TRZ.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/DCD.py to DCD.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/PQR.py to PQR.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/pdb/extensions.py to extensions.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/pdb/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/units.py to units.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/util.py to util.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/log.py to log.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/distances.py to distances.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/transformations.py to transformations.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/NeighborSearch.py to NeighborSearch.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/mdamath.py to mdamath.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/topologyobjects.py to topologyobjects.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/util.py to util.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/parallel.py to parallel.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/log.py to log.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/qcprot.py to qcprot.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/distances.py to distances.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py to AtomGroup.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/transformations.py to transformations.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/Selection.py to Selection.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/units.py to units.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/Timeseries.py to Timeseries.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/tests/datafiles.py to datafiles.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/tests/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/psa.py to psa.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/density.py to density.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/base.py to base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hole.py to hole.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/align.py to align.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/waterdynamics.py to waterdynamics.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/gnm.py to gnm.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/leaflet.py to leaflet.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds/hbond_analysis.py to hbond_analysis.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds/hbond_autocorrel.py to hbond_autocorrel.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/hbonds/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/distances.py to distances.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/x3dna.py to x3dna.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/lineardensity.py to lineardensity.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/nuclinfo.py to nuclinfo.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/polymer.py to polymer.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/helanal.py to helanal.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/rdf.py to rdf.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/rms.py to rms.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/contacts.py to contacts.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/analysis/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_writer.py to fix_writer.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_framenumberingzerobased.py to fix_framenumberingzerobased.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_camelcase.py to fix_camelcase.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_agmethods2.py to fix_agmethods2.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_selectatoms.py to fix_selectatoms.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_numframes.py to fix_numframes.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_mdaimports.py to fix_mdaimports.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_torsions.py to fix_torsions.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_agmethods.py to fix_agmethods.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_calctorsions.py to fix_calctorsions.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_agsetterpluralization.py to fix_agsetterpluralization.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py to fix_framenumberingzerobased2.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_agcountmethods.py to fix_agcountmethods.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/fix_torsionclasses.py to fix_torsionclasses.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/fixes/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/ten2eleven.py to ten2eleven.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/test_dummy_torsion.py to test_dummy_torsion.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/migration/test_dummy_old_MDA_code.py to test_dummy_old_MDA_code.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization/streamlines.py to streamlines.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization/streamlines_3D.py to streamlines_3D.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/visualization/__init__.py to __init__.pyc
>writing byte-compilation script '/tmp/tmpJRUhyd.py'
>/usr/bin/python2 -O /tmp/tmpJRUhyd.py
>removing /tmp/tmpJRUhyd.py
>running install_egg_info
>running egg_info
>creating MDAnalysis.egg-info
>writing requirements to MDAnalysis.egg-info/requires.txt
>writing MDAnalysis.egg-info/PKG-INFO
>writing top-level names to MDAnalysis.egg-info/top_level.txt
>writing dependency_links to MDAnalysis.egg-info/dependency_links.txt
>writing manifest file 'MDAnalysis.egg-info/SOURCES.txt'
>reading manifest file 'MDAnalysis.egg-info/SOURCES.txt'
>reading manifest template 'MANIFEST.in'
>warning: no files found matching 'MDAnalysis/coordinates/xdrfile/src/*'
>warning: no files found matching 'MDAnalysis/lib/src/pyqcprot/*'
>warning: no previously-included files matching '*.pyc' found anywhere in distribution
>warning: no previously-included files matching '*.pyo' found anywhere in distribution
>warning: no previously-included files matching '*.pyd' found anywhere in distribution
>warning: no previously-included files matching '*~' found anywhere in distribution
>writing manifest file 'MDAnalysis.egg-info/SOURCES.txt'
>Copying MDAnalysis.egg-info to /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis-0.14.0-py2.7.egg-info
>running install_scripts
>+ find /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis -type f -name '*.so'
>+ xargs chmod 755
>+ pushd MDAnalysisTests-0.14.0
>~/build/BUILD/MDAnalysis-0.14.0/MDAnalysisTests-0.14.0 ~/build/BUILD/MDAnalysis-0.14.0
>+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64'
>+ /usr/bin/python2 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64
>running install
>running install_lib
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_transformations.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_streamio.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_meta.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_closed.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_oplsaa.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_notop.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/2r9r-1b.xyz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/trz_psf.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/make_whole.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_dims2.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/watdyn.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/C12x64.xml.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/align.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_oplsaa_CA_rmsf.npy -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_oplsaa.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/1grm_single.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/conect_parsing.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/plength.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/ifabp_apo_100mM.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/hydrogen-class1.data2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/mini.data -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/datatest.trz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/hydrogen-class1.data -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/cnt-hexagonal-class1.data -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/datatest.data -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/ifabp_apo_100mM.data.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/lammps/cnt-hexagonal-class1.data2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/lammps
>copying build/lib/MDAnalysisTests/data/adk_oplsaa.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_open.crd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/two_water_gro_widebox.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/4E43.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/gram_A_identical_frames.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/xtc_test_only_single_frame_10_atoms.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/sample_velocity_file.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/nucl_res.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/2r9r-1b.xyz.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/cobrotoxin.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/nmr_neopetrosiamide.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_oplsaa.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/tip125_tric_C36.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/CONFIG_order -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/HISTORY_minimal -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/HISTORY -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/CONFIG_minimal -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/CONFIG -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/dlpoly/HISTORY_order -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/dlpoly
>copying build/lib/MDAnalysisTests/data/cobrotoxin.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_closed.dms -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/incomplete.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/bigbox.gro.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/gms
>copying build/lib/MDAnalysisTests/data/gms/c1opt.gms.gz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/gms
>copying build/lib/MDAnalysisTests/data/gms/symopt.gms -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/gms
>copying build/lib/MDAnalysisTests/data/gms/surf2wat.gms -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/gms
>copying build/lib/MDAnalysisTests/data/two_water_gro.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/five.xyz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/cobrotoxin.trr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_notop_BAD.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/test_topology.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/test.xyz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/test.trr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/test.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/README.md -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/create_data.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/coordinates/test.xyz.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates
>copying build/lib/MDAnalysisTests/data/trr_test_only_single_frame_10_atoms.trr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/SiN_tric_namd.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/dppc_vesicle_hg.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/bala.trj -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/posfor.ncdf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/bala.prmtop -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/anti.top -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/capped-ala.mdcrd.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/tz2.truncoct.nc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/bala.ncdf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/ache.mdcrd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/anti_md1.mdcrd.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/ache.prmtop -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/capped-ala.prmtop -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/tz2.truncoct.parm7.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/posfor.top -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/ache.mdcrd.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/Amber/test.inpcrd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/Amber
>copying build/lib/MDAnalysisTests/data/empty.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/A6PA6_alpha.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/merge
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/merge/2zmm
>copying build/lib/MDAnalysisTests/data/merge/2zmm/protein.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/merge/2zmm
>copying build/lib/MDAnalysisTests/data/merge/2zmm/ligand.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/merge/2zmm
>copying build/lib/MDAnalysisTests/data/merge/2zmm/water.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/merge/2zmm
>copying build/lib/MDAnalysisTests/data/trr_test_only_10_frame_10_atoms.trr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/watdyn.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/mol2
>copying build/lib/MDAnalysisTests/data/mol2/Molecules.mol2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/mol2
>copying build/lib/MDAnalysisTests/data/mol2/Molecule.mol2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/mol2
>copying build/lib/MDAnalysisTests/data/mol2/BrokenMolecule.mol2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/mol2
>copying build/lib/MDAnalysisTests/data/adk_open.pqr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/unordered_res.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/trzfile.trz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/tip125_tric_C36.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/nosegid.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_oplsaa.trr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/test.fasta -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/xl_serial.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_open.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/xtc_test_only_10_frame_10_atoms.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/pdbqt_inputpdbqt.pdbqt -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/1hvr.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/capping
>copying build/lib/MDAnalysisTests/data/capping/maestro_aaqaa_capped.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/capping
>copying build/lib/MDAnalysisTests/data/capping/aaqaa.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/capping
>copying build/lib/MDAnalysisTests/data/capping/nma.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/capping
>copying build/lib/MDAnalysisTests/data/capping/ace.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/capping
>copying build/lib/MDAnalysisTests/data/cobrotoxin_protein_forces.xvg.bz2 -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/pdbqt_querypdb.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk_dims.dcd -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/1k5i.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/martini_dppc_chol_bilayer.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/cobrotoxin_dry_neutral_0.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/mini.xyz -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/two_water_gro_nonames.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/2r9r-1b.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/namd_cgenff.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/adk.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_5.0.5.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_5.0.2.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_5.1.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/ab42_gmx_4.6.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/drew_gmx_4.5.5.double.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs/all_bonded
>copying build/lib/MDAnalysisTests/data/tprs/all_bonded/dummy.mdp -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs/all_bonded
>copying build/lib/MDAnalysisTests/data/tprs/all_bonded/dummy.gro -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs/all_bonded
>copying build/lib/MDAnalysisTests/data/tprs/all_bonded/dummy.top -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs/all_bonded
>copying build/lib/MDAnalysisTests/data/tprs/all_bonded/dummy_5.1.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs/all_bonded
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.7.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/ab42_gmx_4.6.1.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.5.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.2.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.5.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.4.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_5.0.4.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.4.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.1.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.2.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.5.3.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.3.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/tprs/2lyz_gmx_4.0.6.tpr -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/tprs
>copying build/lib/MDAnalysisTests/data/cobrotoxin.xtc -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/namd_cgenff.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/SiN_tric_namd.psf -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/helanal_bending_matrix_AdK_DIMS_H8.dat -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/data/5digitResid.pdb -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>copying build/lib/MDAnalysisTests/test_log.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_altloc.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_datafiles.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_distances.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_nuclinfo.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_imports.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_topology.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_dcd.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_dlpoly.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_coordinates.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_trz.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_dms.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_pdb.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_timestep_api.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/reference.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_trj.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_xdr.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_xyz.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_gms.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_gro.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_mol2.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_pdbqt.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_reader_api.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_pqr.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_lammps.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/coordinates/test_netcdf.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates
>copying build/lib/MDAnalysisTests/test_atomselections.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_qcprot.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_velocities_forces.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_deprecated.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/plugins/cleanup.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/plugins/capture_err.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/plugins/knownfailure.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/plugins/memleak.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/plugins/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins
>copying build/lib/MDAnalysisTests/test_persistence.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_helanal.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_lineardensity.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_waterdynamics.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_density.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_distances.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_rms.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_align.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_rdf.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_leaflet.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_base.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_hbonds.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_hole.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_psa.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_contacts.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/analysis/test_persistencelength.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis
>copying build/lib/MDAnalysisTests/test_atomgroup.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_tprparser.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_selections.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/datafiles.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_units.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_modelling.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>copying build/lib/MDAnalysisTests/test_lammpsdata.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>creating /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/formats
>copying build/lib/MDAnalysisTests/formats/test_libmdaxdr.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/formats
>copying build/lib/MDAnalysisTests/formats/__init__.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/formats
>copying build/lib/MDAnalysisTests/test_util.py -> /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_transformations.py to test_transformations.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_streamio.py to test_streamio.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_meta.py to test_meta.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates/create_data.py to create_data.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_log.py to test_log.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_altloc.py to test_altloc.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_datafiles.py to test_datafiles.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_distances.py to test_distances.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_nuclinfo.py to test_nuclinfo.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_imports.py to test_imports.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_topology.py to test_topology.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/base.py to base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_dcd.py to test_dcd.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_dlpoly.py to test_dlpoly.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_coordinates.py to test_coordinates.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py to test_trz.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_dms.py to test_dms.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_pdb.py to test_pdb.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_timestep_api.py to test_timestep_api.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/reference.py to reference.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trj.py to test_trj.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_xdr.py to test_xdr.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_xyz.py to test_xyz.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_gms.py to test_gms.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_gro.py to test_gro.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_mol2.py to test_mol2.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_pdbqt.py to test_pdbqt.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_reader_api.py to test_reader_api.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_pqr.py to test_pqr.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_lammps.py to test_lammps.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_netcdf.py to test_netcdf.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py to test_atomselections.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_qcprot.py to test_qcprot.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_velocities_forces.py to test_velocities_forces.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_deprecated.py to test_deprecated.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins/cleanup.py to cleanup.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins/capture_err.py to capture_err.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins/knownfailure.py to knownfailure.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins/memleak.py to memleak.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/plugins/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_persistence.py to test_persistence.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_helanal.py to test_helanal.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_lineardensity.py to test_lineardensity.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_waterdynamics.py to test_waterdynamics.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_density.py to test_density.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_distances.py to test_distances.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_rms.py to test_rms.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_align.py to test_align.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_rdf.py to test_rdf.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_leaflet.py to test_leaflet.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_base.py to test_base.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_hbonds.py to test_hbonds.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_hole.py to test_hole.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_psa.py to test_psa.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_contacts.py to test_contacts.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/analysis/test_persistencelength.py to test_persistencelength.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py to test_atomgroup.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_tprparser.py to test_tprparser.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_selections.py to test_selections.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/datafiles.py to datafiles.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_units.py to test_units.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_modelling.py to test_modelling.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_lammpsdata.py to test_lammpsdata.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/formats/test_libmdaxdr.py to test_libmdaxdr.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/formats/__init__.py to __init__.pyc
>byte-compiling /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_util.py to test_util.pyc
>writing byte-compilation script '/tmp/tmpUynPh0.py'
>/usr/bin/python2 -O /tmp/tmpUynPh0.py
>removing /tmp/tmpUynPh0.py
>running install_egg_info
>running egg_info
>creating MDAnalysisTests.egg-info
>writing requirements to MDAnalysisTests.egg-info/requires.txt
>writing MDAnalysisTests.egg-info/PKG-INFO
>writing top-level names to MDAnalysisTests.egg-info/top_level.txt
>writing dependency_links to MDAnalysisTests.egg-info/dependency_links.txt
>writing manifest file 'MDAnalysisTests.egg-info/SOURCES.txt'
>reading manifest file 'MDAnalysisTests.egg-info/SOURCES.txt'
>reading manifest template 'MANIFEST.in'
>warning: no files found matching 'TODO'
>warning: no files found matching 'SUMMARY.txt'
>warning: no previously-included files matching '*~' found anywhere in distribution
>warning: no previously-included files matching '*.pkl' found anywhere in distribution
>writing manifest file 'MDAnalysisTests.egg-info/SOURCES.txt'
>Copying MDAnalysisTests.egg-info to /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests-0.14.0-py2.7.egg-info
>running install_scripts
>+ popd
>~/build/BUILD/MDAnalysis-0.14.0
>+ /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 /builddir/build/BUILD/MDAnalysis-0.14.0
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/_dcdmodule.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/dcdtimeseries.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/c_distances.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/_transformations.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/c_distances_openmp.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/qcprot.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats/cython_util.so
>extracting debug info from /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/lib/formats/libmdaxdr.so
>/usr/lib/rpm/sepdebugcrcfix: Updated 8 CRC32s, 0 CRC32s did match.
>8707 blocks
>+ /usr/lib/rpm/check-buildroot
>+ /usr/lib/rpm/brp-compress
>+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
>+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1
>Bytecompiling .py files below /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/debug/usr/lib64/python2.7 using /usr/bin/python2.7
>Bytecompiling .py files below /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7 using /usr/bin/python2.7
>Bytecompiling .py files below /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7 using /usr/bin/python2.7
>+ /usr/lib/rpm/brp-python-hardlink
>Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.a3xG9c
>+ umask 022
>+ cd /builddir/build/BUILD
>+ cd MDAnalysis-0.14.0
>++ getconf _NPROCESSORS_ONLN
>++ pwd
>+ PYTHONPATH=/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages:/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages:/builddir/build/BUILD/MDAnalysis-0.14.0
>+ /usr/bin/python2 MDAnalysisTests-0.14.0/MDAnalysisTests/mda_nosetests -v --processes=4 --process-timeout=240
>MDAnalysis.analysis.align: test fasta2select() with calling ... SKIP: Skipping test: test_fasta2select_ClustalW: Test skipped because clustalw2 executable not found
>test align.fasta2select() on aligned FASTA (Issue 112) ... ok
>MDAnalysisTests.analysis.test_align.TestRotationMatrix.test_list_args ... ok
>MDAnalysisTests.analysis.test_align.TestRotationMatrix.test_no_solution_no_weights ... ok
>MDAnalysisTests.analysis.test_align.TestRotationMatrix.test_no_solution_with_weights ... ok
>MDAnalysisTests.analysis.test_align.TestRotationMatrix.test_wrong_dtype ... ok
>MDAnalysisTests.analysis.test_base.TestAnalysisBase.test_default ... ok
>MDAnalysisTests.analysis.test_base.TestAnalysisBase.test_start ... ok
>MDAnalysisTests.analysis.test_base.TestAnalysisBase.test_step ... ok
>test_delta (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>test_edges (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>test_grid (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>test_midpoints (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>test_origin (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>test_shape (MDAnalysisTests.analysis.test_density.TestDensity) ... ok
>MDAnalysisTests.analysis.test_base.TestAnalysisBase.test_stop ... ok
>test_box_numpy (MDAnalysisTests.analysis.test_distances.TestContactMatrix) ... ok
>test_box_sparse (MDAnalysisTests.analysis.test_distances.TestContactMatrix) ... ok
>test_np (MDAnalysisTests.analysis.test_distances.TestContactMatrix) ... ok
>test_sparse (MDAnalysisTests.analysis.test_distances.TestContactMatrix) ... ok
>test_count_by_time (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysis) ... ok
>test_count_by_type (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysis) ... ok
>test_generate_table (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysis) ... ok
>test_helix_backbone (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysis) ... ok
>test_end_zero: TestContactAnalysis1: stop frame 0 is not ignored ... ok
>test_slicing (MDAnalysisTests.analysis.test_contacts.TestContactAnalysis1) ... ok
>test_startframe: TestContactAnalysis1: start frame set to 0 (resolution of Issue #624) ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'protein', 'resname ALA and not backbone', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'protein', 'resname ALA and not backbone', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'protein', 'resname ALA and not backbone', 'both') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'protein', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'protein', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'protein', 'both') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'resname ALA and not backbone', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'resname ALA and not backbone', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_check_static_selections(<class 'MDAnalysis.exceptions.SelectionError'>, <function run_HBA at 0x3fffa9b88758>, 'resname ALA and not backbone', 'resname ALA and not backbone', 'both') ... ok
>Testing that alignto() fails if selections do not ... ok
>Testing align.rms_fit_trj() for all atoms (Issue 58) ... ok
>test_rmsd (MDAnalysisTests.analysis.test_align.TestAlign) ... ok
>test_count_by_time (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavy) ... ok
>test_count_by_type (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavy) ... ok
>test_generate_table (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavy) ... ok
>test_helix_backbone (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavy) ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'protein', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'protein', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'protein', 'both') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'resname ALA and not backbone', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'resname ALA and not backbone', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('protein', 'resname ALA and not backbone', 'both') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'protein', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'protein', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'protein', 'both') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'resname ALA and not backbone', 'donor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'resname ALA and not backbone', 'acceptor') ... ok
>MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisChecking.test_run_empty_selections('resname ALA and not backbone', 'resname ALA and not backbone', 'both') ... ok
>test_count_by_time (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeuristic) ... ok
>test_count_by_type (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeuristic) ... ok
>test_generate_table (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeuristic) ... ok
>test_helix_backbone (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeuristic) ... ok
>test_count_by_time (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavyFail) ... ok
>test_count_by_type (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavyFail) ... ok
>test_generate_table (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavyFail) ... ok
>test_helix_backbone (MDAnalysisTests.analysis.test_hbonds.TestHydrogenBondAnalysisHeavyFail) ... ok
>MDAnalysisTests.analysis.test_helanal.test_helanal_main ... ok
>MDAnalysis.analysis.hole: Issue 129: ensure low level file descriptors to PDB files used by Hole program are properly closed ... SKIP: Skipping test: test_hole_module_fd_closure: Test skipped because HOLE not found
>testing MDAnalysis.analysis.helanal xtc striding: Check for resolution of Issue #188. ... ok
>test_serial (MDAnalysisTests.analysis.test_lineardensity.TestLinearDensity) ... ok
>MDAnalysisTests.analysis.test_persistencelength.TestFitExponential.test_fit_noisy ... ok
>MDAnalysisTests.analysis.test_persistencelength.TestFitExponential.test_fit_simple ... ok
>test_leaflet_finder (MDAnalysisTests.analysis.test_leaflet.TestLeafletFinder) ... ok
>MDAnalysisTests.analysis.test_helanal.test_helanal_trajectory ... ok
>MDAnalysisTests.analysis.test_persistencelength.TestPersistenceLength.test_ag_VE ... ok
>MDAnalysisTests.analysis.test_persistencelength.TestPersistenceLength.test_fit ... ok
>MDAnalysisTests.analysis.test_rdf.TestInterRDF.test_count ... ok
>MDAnalysisTests.analysis.test_rdf.TestInterRDF.test_count_sum ... ok
>MDAnalysisTests.analysis.test_rdf.TestInterRDF.test_exclusion ... ok
>MDAnalysisTests.analysis.test_rdf.TestInterRDF.test_nbins ... ok
>MDAnalysisTests.analysis.test_rdf.TestInterRDF.test_range ... ok
>MDAnalysisTests.analysis.test_persistencelength.TestPersistenceLength.test_run ... ok
>test_AngularDistribution (MDAnalysisTests.analysis.test_waterdynamics.TestWaterdynamics) ... ok
>test_HydrogenBondLifetimes (MDAnalysisTests.analysis.test_waterdynamics.TestWaterdynamics) ... ok
>test_MeanSquareDisplacement (MDAnalysisTests.analysis.test_waterdynamics.TestWaterdynamics) ... ok
>test_SurvivalProbability (MDAnalysisTests.analysis.test_waterdynamics.TestWaterdynamics) ... ok
>test_WaterOrientationalRelaxation (MDAnalysisTests.analysis.test_waterdynamics.TestWaterdynamics) ... ok
>test_frame (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_frame_numbering (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_iteration (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_jump_lastframe_trajectory (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_next_trajectory (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_slice_trajectory (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_coordinates.TestChainReader) ... ok
>test that ChainReader written dcd (containing crds) is correct ... ok
>test_time (MDAnalysisTests.coordinates.test_coordinates.TestChainReaderCommonDt) ... ok
>test_hausdorff_bound (MDAnalysisTests.analysis.test_psa.TestPSAnalysis) ... ok
>test_reversal_frechet (MDAnalysisTests.analysis.test_psa.TestPSAnalysis) ... ok
>test_reversal_hausdorff (MDAnalysisTests.analysis.test_psa.TestPSAnalysis) ... ok
>test_reader (MDAnalysisTests.coordinates.test_coordinates.TestINPCRDReader) ... ok
>test_universe_inpcrd (MDAnalysisTests.coordinates.test_coordinates.TestINPCRDReader) ... ok
>test_universe_restrt (MDAnalysisTests.coordinates.test_coordinates.TestINPCRDReader) ... ok
>test_density_from_Universe (MDAnalysisTests.analysis.test_density.Test_density_from_Universe) ... ok
>test_density_from_Universe_sliced (MDAnalysisTests.analysis.test_density.Test_density_from_Universe) ... ok
>test_density_from_Universe_update_selection (MDAnalysisTests.analysis.test_density.Test_density_from_Universe) ... ok
>test_rmsf (MDAnalysisTests.analysis.test_rms.TestRMSF) ... ok
>test_rmsf_identical_frames (MDAnalysisTests.analysis.test_rms.TestRMSF) ... ok
>test_rmsf_single_frame (MDAnalysisTests.analysis.test_rms.TestRMSF) ... ok
>test_with_statement (MDAnalysisTests.coordinates.test_dcd.TestDCDReaderClass) ... ok
>test reading of triclinic unitcell (Issue 187) for NAMD or new ... ok
>test writing of triclinic unitcell (Issue 187) for NAMD or new ... ok
>test reading of triclinic unitcell (Issue 187) for NAMD or new ... ok
>test writing of triclinic unitcell (Issue 187) for NAMD or new ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DCD') ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy('DCD', < Timestep 0 with unit cell dimensions [  0.   0.   0.  90.  90.  90.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy('DCD', < Timestep 0 with unit cell dimensions [  0.   0.   0.  90.  90.  90.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy('DCD', < Timestep 0 with unit cell dimensions [  0.   0.   0.  90.  90.  90.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy('DCD', < Timestep 0 with unit cell dimensions [  0.   0.   0.  90.  90.  90.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_copy_slice('DCD', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_triclinic_vectors ... ok
>Check that users can hack in a custom unitcell order ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_dcd.TestDCDTimestep.test_wrong_pos_equality ... ok
>test_Angle (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_Atom (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_Bonds (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_CA_COMeqCOG (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_CenterOfGeometry (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_CenterOfMass (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_Dihedral (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_clear (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_correl (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_scalarDistance (MDAnalysisTests.coordinates.test_dcd.TestDCDCorrel) ... ok
>test_array_trajectory (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_frame (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_jump_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_jump_lastframe_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_list_repeated_trajectory (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_list_reverse_trajectory (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_list_trajectory (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_next_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_reverse_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_rewind_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_slice_dcd (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_totaltime (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_volume (MDAnalysisTests.coordinates.test_dcd.TestDCDReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_dcd.TestNCDF2DCD) ... ok
>NCDFReader: Test that DCDWriter correctly writes the CHARMM ... ok
>Test for Issue 32: 0-size dcds lead to a segfault: now caught with ... ok
>test_OtherWriter (MDAnalysisTests.coordinates.test_dcd.TestDCDWriter) ... ok
>test_dt (MDAnalysisTests.coordinates.test_dcd.TestDCDWriter) ... ok
>test_single_frame (MDAnalysisTests.coordinates.test_dcd.TestDCDWriter) ... ok
>test_with_statement (MDAnalysisTests.coordinates.test_dcd.TestDCDWriter) ... ok
>Test writing DCD trajectories (Issue 50) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigMinimal.test_forces ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigMinimal.test_positions ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigMinimal.test_read_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigMinimal.test_velocities ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigOrder.test_forces ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigOrder.test_positions ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigOrder.test_read_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigOrder.test_velocities ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader.test_forces ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader.test_positions ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader.test_read ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader.test_read_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader.test_velocities ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader2.test_for ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader2.test_names ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader2.test_number ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader2.test_pos ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReader2.test_vel ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReaderMinimal2.test_for ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReaderMinimal2.test_names ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReaderMinimal2.test_number ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReaderMinimal2.test_pos ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestConfigReaderMinimal2.test_vel ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_force ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_getting ... ok
>MDAnalysisTests.coordinates.test_dcd.test_DCDReader_set_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_len ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_position ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_slicing ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_slicing_2 ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_force ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_getting ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_len ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_position ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistory.test_velocity ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_slicing ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_slicing_2 ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryMinimal.test_velocity ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_force ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_getting ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_position ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_len ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_slicing ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_slicing_2 ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_unitcell ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyHistoryOrder.test_velocity ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DLPoly') ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_copy_slice('DLPoly', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_dlpoly.TestDLPolyTimestep.test_wrong_pos_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on DMS') ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy('DMS', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy('DMS', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy('DMS', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy('DMS', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_copy_slice('DMS', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_pos_IE ... ok
>test_set_all_format_tuples (MDAnalysisTests.coordinates.test_coordinates.TestChainReaderFormats) ... ok
>test_set_all_formats (MDAnalysisTests.coordinates.test_coordinates.TestChainReaderFormats) ... ok
>test_set_one_format_tuple (MDAnalysisTests.coordinates.test_coordinates.TestChainReaderFormats) ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_wrong_pos_equality ... ok
>MDAnalysisTests.coordinates.test_dms.TestDMSTimestep.test_wrong_n_atoms_equality ... ok
>test_dt (MDAnalysisTests.coordinates.test_gms.TestGMSReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_gms.TestGMSReader) ... ok
>test_next (MDAnalysisTests.coordinates.test_gms.TestGMSReader) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_gms.TestGMSReader) ... ok
>TestGMSReader: C1 optimization: ... ok
>TestGMSReader: Symmetry-input potential-energy surface: ... ok
>TestGMSReader: Symmetry-input optimization: ... ok
>test_OtherWriter (MDAnalysisTests.coordinates.test_dcd.TestDCDWriter_Issue59) ... ok
>Test writing of XTC to DCD (Issue 59) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on GRO') ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_coordinate_setter_shortcuts ... ok
>test_coords_atom_0 (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_frame (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_global_cell (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_number_of_coords (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>test_velocities (MDAnalysisTests.coordinates.test_dms.TestDMSReader) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy_slice('GRO', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_unitcell_set2 ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_wrong_pos_equality ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy('GRO', < Timestep 0 with unit cell dimensions [ 80.01700592  80.01700592  80.01702881  60.00000381  60.00000381  90.        ] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy('GRO', < Timestep 0 with unit cell dimensions [ 80.01700592  80.01700592  80.01702881  60.00000381  60.00000381  90.        ] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy('GRO', < Timestep 0 with unit cell dimensions [ 80.01700592  80.01700592  80.01702881  60.00000381  60.00000381  90.        ] >) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROTimestep.test_copy('GRO', < Timestep 0 with unit cell dimensions [ 80.01700592  80.01700592  80.01702881  60.00000381  60.00000381  90.        ] >) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_gro.TestGROReaderNoConversion) ... ok
>test_distances (MDAnalysisTests.coordinates.test_gro.TestGROReaderNoConversion) ... ok
>test_unitcell (MDAnalysisTests.coordinates.test_gro.TestGROReaderNoConversion) ... ok
>test_volume (MDAnalysisTests.coordinates.test_gro.TestGROReaderNoConversion) ... ok
>MDAnalysisTests.coordinates.test_gro.TestGROWriterVels.test_write_velocities ... ok
>test_LAMMPSDCDReader_set_dt (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_Reader_is_LAMMPS (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_Timestep_time (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_wrong_time_unit (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>test_wrong_unit (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDReader) ... ok
>Test that illegal GRO coordinates (x > 9999.9995 nm) are caught ... ok
>Test that illegal GRO coordinates (x > 9999.9995 nm) also ... ok
>Test that illegal GRO coordinates (x <= -999.9995 nm) are caught ... ok
>test_timestep_not_modified_by_writer (MDAnalysisTests.coordinates.test_gro.TestGROWriter) ... ok
>test_writer (MDAnalysisTests.coordinates.test_gro.TestGROWriter) ... ok
>test_Writer_is_LAMMPS (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriterClass) ... ok
>test_open (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriterClass) ... ok
>test_wrong_time_unit (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriterClass) ... ok
>test_wrong_unit (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriterClass) ... ok
>test_coords (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_iter (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_seek (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_seek_2 (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_singleframe (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>test_velos (MDAnalysisTests.coordinates.test_lammps.TestLammpsDataMini_Coords) ... ok
>MDAnalysisTests.coordinates.test_lammps.TestLammpsDataTriclinic.test_triclinicness ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>testing that accessing universe.trajectory.dt gives ... ok
>test_flag_convert_lengths (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_frame (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_load_gro (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_selection (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_unitcell (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>test_volume (MDAnalysisTests.coordinates.test_gro.TestGROReader) ... ok
>MDAnalysisTests.coordinates.test_lammps.test_datareader_ValueError ... ok
>test_broken_molecule (MDAnalysisTests.coordinates.test_mol2.TestMol2) ... ok
>test_read (MDAnalysisTests.coordinates.test_mol2.TestMol2) ... ok
>test_write (MDAnalysisTests.coordinates.test_mol2.TestMol2) ... ok
>test_write_in_loop (MDAnalysisTests.coordinates.test_mol2.TestMol2) ... ok
>test_write_selection (MDAnalysisTests.coordinates.test_mol2.TestMol2) ... ok
>test_jump_lastframe_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_jump_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_next_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_reverse_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_rewind_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_slice_traj (MDAnalysisTests.coordinates.test_mol2.TestMol2_traj) ... ok
>test_amber_proteinselection (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_initial_frame_is_0 (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_load_prm (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_metadata (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_periodic (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_slice_iteration (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>Test that coordinate arrays are filled as soon as the trajectory ... ok
>test_sum_centres_of_geometry (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReader2) ... ok
>Check forces on first frame ... ok
>Check forces on second frame ... ok
>Check positions on first frame ... ok
>Check positions on second frame ... ok
>Check time on first frame ... ok
>Check time on second frame ... ok
>test_OtherWriter (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriter) ... ok
>test_OtherWriter_is_LAMMPS (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriter) ... ok
>test_Writer (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriter) ... ok
>test_Writer_is_LAMMPS (MDAnalysisTests.coordinates.test_lammps.TestLAMMPSDCDWriter) ... ok
>test_amber_proteinselection (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_dt (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_initial_frame_is_0 (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_load_prm (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_metadata (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_periodic (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_slice_iteration (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>Test that coordinate arrays are filled as soon as the trajectory ... ok
>test_sum_centres_of_geometry (MDAnalysisTests.coordinates.test_netcdf.TestNCDFReaderTZ2) ... ok
>test_OtherWriter (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriter) ... ok
>test_TRR2NCDF (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriter) ... ok
>test to write NCDF from AtomGroup (Issue 116) ... ok
>test_write_trajectory (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriter) ... ok
>test_pos (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterVelsForces) ... ok
>test_pos_force (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterVelsForces) ... ok
>test_pos_vel (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterVelsForces) ... ok
>test_pos_vel_force (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterVelsForces) ... ok
>test_coords (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_iter (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_seek (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_seek_2 (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_singleframe (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>test_velos (MDAnalysisTests.coordinates.test_lammps.TestLammpsData_Coords) ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_coords ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_dims ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_names ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_natoms ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_occupancy ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_reading_trajectory ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_residues ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_resnames ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_set_occupancies ... ok
>MDAnalysisTests.coordinates.test_pdb.TestIncompletePDB.test_set_occupancy ... ok
>Test that atom numbers are truncated for large ... ok
>test_OtherWriter (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterTZ2) ... ok
>test_TRR2NCDF (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterTZ2) ... ok
>test to write NCDF from AtomGroup (Issue 116) ... ok
>test_write_trajectory (MDAnalysisTests.coordinates.test_netcdf.TestNCDFWriterTZ2) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_long_resSeq (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestExtendedPDBReader) ... ok
>Test write_all_timesteps() of the  multiframe writer (selected frames ... ok
>test_write_atoms (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBWriter) ... ok
>Test if multiframe writer can write selected frames for an ... ok
>Modify occupancies, write out the file and check ... ok
>MDAnalysisTests.coordinates.test_pdb.TestPDBXLSerial.test_load ... ok
>MDAnalysisTests.coordinates.test_pdb.TestPDBXLSerial.test_serials ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPSF_CRDReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... KNOWNFAIL: Biopython PDB reader does not parse CRYST1
>-------------------- >> begin captured stderr << ---------------------
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT1' for Atom (name=HT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT2' for Atom (name=HT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT3' for Atom (name=HT3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'SG' for Atom (name=SG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT1' for Atom (name=OT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT2' for Atom (name=OT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT1' for Atom (name=HT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT2' for Atom (name=HT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT3' for Atom (name=HT3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'SG' for Atom (name=SG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT1' for Atom (name=OT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT2' for Atom (name=OT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>--------------------- >> end captured stderr << ----------------------
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/adk_open.pdb...
>--------------------- >> end captured logging << ---------------------
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_uses_Biopython (MDAnalysisTests.coordinates.test_pdb.TestPDBReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_missing_natoms (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_wrong_natoms (MDAnalysisTests.coordinates.test_pdb.TestPSF_PrimitivePDBReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_dimensions (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... KNOWNFAIL: Biopython PDB reader does not parse CRYST1
>-------------------- >> begin captured stderr << ---------------------
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT1' for Atom (name=HT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT2' for Atom (name=HT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT3' for Atom (name=HT3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'SG' for Atom (name=SG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT1' for Atom (name=OT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT2' for Atom (name=OT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>--------------------- >> end captured stderr << ----------------------
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/adk.psf: format STANDARD
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/adk_open.pdb...
>--------------------- >> end captured logging << ---------------------
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_uses_Biopython (MDAnalysisTests.coordinates.test_pdb.TestPSF_PDBReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_missing_natoms (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_wrong_natoms (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader) ... ok
>test_COMPND (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader_Metadata) ... ok
>test_HEADER (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader_Metadata) ... ok
>test_REMARK (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader_Metadata) ... ok
>test_TITLE (MDAnalysisTests.coordinates.test_pdb.TestPrimitivePDBReader_Metadata) ... ok
>MDAnalysisTests.coordinates.test_pdb.TestWriterAlignments.test_atomname_alignment ... ok
>MDAnalysisTests.coordinates.test_pdb.TestWriterAlignments.test_atomtype_alignment ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='ASP', name='CA'), ' CA ') ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='GLU', name='OE1'), ' OE1') ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='MSE', name='SE'), 'SE  ') ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='CA', name='CA'), 'CA  ') ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='HDD', name='FE'), 'FE  ') ... ok
>MDAnalysisTests.coordinates.test_pdb.test_deduce_PDB_atom_name(Atom(resname='PLC', name='P'), ' P  ') ... ok
>test_conect_bonds_all (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_conect_bonds_conect (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_iteration (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_n_atoms_frame (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_numconnections (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_slice_iteration (MDAnalysisTests.coordinates.test_pdb.TestMultiPDBReader) ... ok
>test_backbone (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test KDTree-based distance search around query atoms ... ok
>test_protein (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test_segid (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>test_writer (MDAnalysisTests.coordinates.test_pdbqt.TestPDBQT) ... ok
>Test that illegal PDB coordinates (x > 9999.9995 A) are caught ... ok
>Test that illegal PDB coordinates (x <= -999.9995 A) are caught ... ok
>Test writing a single frame from a DCD trajectory to a PDB using ... ok
>Test writing a single frame from a DCD trajectory to a PDB using ... ok
>Test writing from a single frame PDB file to a PDB file. ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_array_TE ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice([True, False, True, False, True, False, True, False, True, False],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice(array([ True, False,  True, False,  True, False,  True, False,  True, False], dtype=bool),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice([True, True, False, False, True, True, False, True, False, True],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice(array([ True,  True, False, False,  True,  True, False,  True, False,  True], dtype=bool),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice([True, True, True, True, True, True, True, True, True, True],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice(array([ True,  True,  True,  True,  True,  True,  True,  True,  True,  True], dtype=bool),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice([False, False, False, False, False, False, False, False, False, False],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_bool_slice(array([False, False, False, False, False, False, False, False, False, False], dtype=bool),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_close ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_context ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints([0, 1, 4, 5],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints(array([0, 1, 4, 5]),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints([5, 1, 6, 2, 7, 3, 8],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints(array([5, 1, 6, 2, 7, 3, 8]),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints([0, 1, 1, 1, 0, 0, 2, 3, 4],) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_getitem_list_ints(array([0, 1, 1, 1, 0, 0, 2, 3, 4]),) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_iter ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_len ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_list_TE ... ok
>Test that Reader has the required attributes ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_rewind ... ok
>Stop less than start ... ok
>Stop less than start ... ok
>Outside of range of trajectory ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slice_IE_3 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slice_TE_1 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slice_VE_1 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, None, None) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, 5, None) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(2, None, None) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(2, 5, None) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, None, 2) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, None, -1) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(0, 10, 1) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(0, 10, 2) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, 20, None) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, 20, 2) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(0, 5, 2) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(5, None, -1) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestMultiFrameReader.test_slices(None, 5, -1) ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_close ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_context ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_getitem ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_getitem_2 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_getitem_IE ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_getitem_IE_2 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_iter ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_len ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_next ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_read_frame ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_reopen ... ok
>Test that Reader has the required attributes ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_rewind ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_slice_1 ... ok
>MDAnalysisTests.coordinates.test_reader_api.TestSingleFrameReader.test_slice_2 ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on base') ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_copy_slice('base', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_other_timestep(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, "Failed on <class 'MDAnalysis.coordinates.DCD.Timestep'>") ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_other_timestep(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, "Failed on <class 'MDAnalysis.coordinates.TRJ.Timestep'>") ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_other_timestep(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, "Failed on <class 'MDAnalysis.coordinates.DMS.Timestep'>") ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_other_timestep(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, "Failed on <class 'MDAnalysis.coordinates.GRO.Timestep'>") ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_other_timestep(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, "Failed on <class 'MDAnalysis.coordinates.TRZ.Timestep'>") ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestBaseTimestep.test_wrong_pos_equality ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestCRD.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestCRD.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDCD.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDCD.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDLPConfig.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDLPConfig.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDLPHistory.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDLPHistory.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDMS.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestDMS.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestGMS.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestGMS.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestGRO.test_dt ... ok
>test_timestep_not_modified_by_writer (MDAnalysisTests.coordinates.test_pqr.TestPQRWriter) ... ok
>test_total_charge (MDAnalysisTests.coordinates.test_pqr.TestPQRWriter) ... ok
>test_write_withChainID (MDAnalysisTests.coordinates.test_pqr.TestPQRWriter) ... ok
>test_writer_noChainID (MDAnalysisTests.coordinates.test_pqr.TestPQRWriter) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestINPCRD.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestINPCRD.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestGRO.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestLAMMPS.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestLAMMPS.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestLAMMPSDCD.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestMOL2.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestMOL2.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestNCDF.test_dt ... ok
>test_ArgCACharges (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_ProNCharges (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>testing that accessing universe.trajectory.dt gives 1.0 ... ok
>test_flag_permissive_pdb_reader: permissive_pdb_reader==True enables ... ok
>test_frame (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_frame_index_0 (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_frame_index_1_raises_IndexError (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_hydrogenCharges (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_last_slice (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_load_file (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_numres (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>test_total_charge (MDAnalysisTests.coordinates.test_pqr.TestPQRReader) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestNCDF.test_frame ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_distances (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>testing that accessing universe.trajectory.dt returns the default ... ok
>test_first_residue (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_frame (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_load_pdb (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_n_residues (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_selection (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_time (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_unitcell (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>test_volume (MDAnalysisTests.coordinates.test_pdb.TestPDBReaderBig) ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestPDB.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestPDB.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestPDBQT.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestPDBQT.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestTRJ.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestTRJ.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestLAMMPSDCD.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestPQR.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestTRZ.test_dt ... ERROR
>MDAnalysisTests.coordinates.test_timestep_api.TestPQR.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestTRZ.test_frame ... ERROR
>MDAnalysisTests.coordinates.test_timestep_api.TestTRR.test_dt ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestTRR.test_frame ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestXTC.test_dt ... ok
>test_amber_proteinselection (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_initial_frame_is_0 (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_load_prm (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_periodic (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>test_slice_raises_TypeError (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>Test that coordinate arrays are filled as soon as the trajectory ... ok
>test_sum_centres_of_geometry (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReader) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRJ') ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy('TRJ', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy('TRJ', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy('TRJ', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy('TRJ', < Timestep 0 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>test_amber_proteinselection (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_initial_frame_is_0 (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_load_prm (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_periodic (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>test_slice_raises_TypeError (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>Test that coordinate arrays are filled as soon as the trajectory ... ok
>test_sum_centres_of_geometry (MDAnalysisTests.coordinates.test_trj.TestTRJReader) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_timestep_api.TestXTC.test_frame ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_copy_slice('TRJ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_trj.TestTRJTimestep.test_wrong_pos_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_allocate_forces ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_allocate_velocities ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_bad_copy_slice(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_change_dt ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_mismatched_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_mismatched_vels_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_vels_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_wrong_forces_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_wrong_vels_equality ... ok
>testing that reading _x, _y, and _z works as expected ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_coordinate_setter_shortcuts ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_check_equal(< Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >, 'Failed on TRZ') ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_copy_slice('TRZ', < Timestep -1 with unit cell dimensions [ 0.  0.  0.  0.  0.  0.] >) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_data_presence ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_delete_dt ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_delete_time ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_dimensions ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_dimensions_set_box ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_dt ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_forces_remove ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates_mismatch ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_coordinates_nodata ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(True, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(True, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(True, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(True, False, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(False, True, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(False, True, False) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_from_timestep(False, False, True) ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_TE ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_ndarray ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_neg ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_neg_IE ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_pos_IE ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_slice ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_getitem_slice2 ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_iter ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_len ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_n_atoms_presence ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_n_atoms_readonly ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_redefine_dt ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_repr ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_set_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_supply_dt ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_supply_time_offset ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_time ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_time_overrides_dt_with_offset ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_time_with_offset ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_triclinic_vectors ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_unitcell_presence ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_velocities_remove ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_volume ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_wrong_class_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_wrong_frame_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_wrong_n_atoms_equality ... ok
>MDAnalysisTests.coordinates.test_trz.TestTRZTimestep.test_wrong_pos_equality ... ok
>Failure: IOError () ... ERROR
>MDAnalysisTests.coordinates.test_trz.TestTRZWriter2.test_writer_trz_from_other ... ok
>test_write_trajectory (MDAnalysisTests.coordinates.test_trz.TestWrite_Partial_Timestep) ... ERROR
>test_long_title (MDAnalysisTests.coordinates.test_trz.TestTRZWriter) ... ERROR
>test_write_trajectory (MDAnalysisTests.coordinates.test_trz.TestTRZWriter) ... ERROR
>test_coordinates (MDAnalysisTests.coordinates.test_xdr.TestTRRNoConversion) ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_changing_dimensions ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_double_close ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_dt ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_first_dimensions ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_first_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_frame_jump ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_delta (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_get_writer (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_get_writer_2 (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_load_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_n_frames (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_next_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_rewind_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_seeking (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_time (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_title (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_unitcell (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_velocities (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>test_volume (MDAnalysisTests.coordinates.test_trz.TestTRZReader) ... ERROR
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_get_writer_1 ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_get_writer_2 ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_go_over_last_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_iter ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_last_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_n_frames ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_next_gives_second_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_reopen ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_total_time ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_ts_dt_matches_reader ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRReader_2.test_volume ... ok
>test_load_new_raises_ValueError (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_Sub) ... ok
>load solvated trajectory into universe with unsolvated protein. ... ok
>test_amber_proteinselection (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_full_slice (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_initial_frame_is_0 (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_load_prm (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_n_atoms (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_n_frames (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_periodic (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_rewind (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>test_slice_raises_TypeError (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>Test that coordinate arrays are filled as soon as the trajectory ... ok
>test_sum_centres_of_geometry (MDAnalysisTests.coordinates.test_trj.TestBzippedTRJReaderPBC) ... ok
>Test writing Gromacs trajectories from AMBER NCDF (Issue 117) ... ok
>test_offsets (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_persistent_offsets_ctime_mismatch (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_persistent_offsets_last_frame_wrong (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_persistent_offsets_natoms_mismatch (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_persistent_offsets_readonly (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_persistent_offsets_size_mismatch (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_reload_offsets (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>test_unsupported_format (MDAnalysisTests.coordinates.test_xdr.TestTRRReader_offsets) ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_no_container ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_different_box ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_none ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_not_changing_ts ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_selection ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_trajectory_atomgroup ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_trajectory_timestep ... ok
>MDAnalysisTests.coordinates.test_xdr.TestTRRWriter_2.test_write_trajectory_universe ... ok
>test_single_frame_CRD (MDAnalysisTests.coordinates.test_xdr.TestTRRWriterSingleFrame) ... ok
>test_single_frame_GRO (MDAnalysisTests.coordinates.test_xdr.TestTRRWriterSingleFrame) ... ok
>test_single_frame_PDB (MDAnalysisTests.coordinates.test_xdr.TestTRRWriterSingleFrame) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_xdr.TestXTCNoConversion) ... ok
>test_with_statement (MDAnalysisTests.coordinates.test_xdr.TestXTCReaderClass) ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_changing_dimensions ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_double_close ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_dt ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_first_dimensions ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_first_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_frame_jump ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_get_writer_1 ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_get_writer_2 ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_go_over_last_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_iter ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_last_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_n_frames ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_next_gives_second_frame ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_reopen ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_total_time ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_ts_dt_matches_reader ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCReader_2.test_volume ... ok
>test_load_new_raises_ValueError (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_Sub) ... ok
>load solvated trajectory into universe with unsolvated protein. ... ok
>Tests the writing and reading back of TRRs with gaps in any of ... ok
>test_timestep_not_modified_by_writer (MDAnalysisTests.coordinates.test_xdr.TestTRRWriter) ... ok
>test_velocities (MDAnalysisTests.coordinates.test_xdr.TestTRRWriter) ... ok
>Test writing Gromacs trajectories (Issue 38) ... ok
>test_offsets (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_persistent_offsets_ctime_mismatch (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_persistent_offsets_last_frame_wrong (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_persistent_offsets_natoms_mismatch (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_persistent_offsets_readonly (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_persistent_offsets_size_mismatch (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_reload_offsets (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>test_unsupported_format (MDAnalysisTests.coordinates.test_xdr.TestXTCReader_offsets) ... ok
>Test writing Gromacs trajectories from AMBER NCDF (Issue 117) ... ok
>test_timestep_not_modified_by_writer (MDAnalysisTests.coordinates.test_xdr.TestXTCWriter) ... ok
>Test writing Gromacs trajectories (Issue 38) ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_different_precision ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_no_container ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_different_box ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_none ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_not_changing_ts ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_selection ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_trajectory_atomgroup ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_trajectory_timestep ... ok
>MDAnalysisTests.coordinates.test_xdr.TestXTCWriter_2.test_write_trajectory_universe ... ok
>Test coordinates.core.triclinic_box() (Issue 61) ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_changing_dimensions ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_double_close ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_dt ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_first_dimensions ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_first_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_frame_jump ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_get_writer_1 ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_get_writer_2 ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_go_over_last_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_iter ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_last_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_n_frames ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_next_gives_second_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_reopen ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_total_time ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_ts_dt_matches_reader ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZReader.test_volume ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_no_container ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_no_conversion ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_different_box ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_different_models_in_trajectory ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_model_container ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_none ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_not_changing_ts ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_selection ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_trajectory_atomgroup ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_trajectory_timestep ... ok
>MDAnalysisTests.coordinates.test_xyz.TestXYZWriter.test_write_trajectory_universe ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_changing_dimensions ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_double_close ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_dt ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_first_dimensions ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_first_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_frame_jump ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_get_writer_1 ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_get_writer_2 ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_go_over_last_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_iter ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_last_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_n_atoms ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_n_frames ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_next_gives_second_frame ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_reopen ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_total_time ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_ts_dt_matches_reader ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZReader.test_volume ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_no_container ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_no_conversion ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_different_box ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_different_models_in_trajectory ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_model_container ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_none ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_not_changing_ts ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_selection ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_trajectory_atomgroup ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_trajectory_timestep ... ok
>MDAnalysisTests.coordinates.test_xyz.Test_XYZBZWriter.test_write_trajectory_universe ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_iter ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_n_atoms ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_offset ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_open_wrong_mode ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_over_seek ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_raise_not_existing ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_read_closed ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_read_write_mode_file ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_seek ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_seek_overflow ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_seek_tell_all ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_seek_tell_all_bytes ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_seek_tell_largefile ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_set_offsets ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_TRRFile.test_tell ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_iter ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_n_atoms ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_offset ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_open_wrong_mode ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_over_seek ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_raise_not_existing ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_read_closed ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_read_write_mode_file ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_seek ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_seek_overflow ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_seek_tell_all ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_seek_tell_all_bytes ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_seek_tell_largefile ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_set_offsets ... ok
>MDAnalysisTests.formats.test_libmdaxdr.Test_XTCFile.test_tell ... ok
>test if we can write different box-sizes for different frames. ... ok
>test if we can write different box-sizes for different frames. ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_f ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_natoms ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_prec ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_v ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_x_trr ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_different_x_xtc ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_prec ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_trr ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_write_xtc ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_xtc ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_read_multi_frame_xtc ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_trr ... ok
>MDAnalysisTests.formats.test_libmdaxdr.test_read_multi_frame_trr ... ok
>test_EOFraisesIOErrorEIO (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_Writer (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_flag_convert_lengths (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_frame (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_get_Writer (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_jump_lastframe_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_jump_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_next_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_reverse_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_rewind_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_slice_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_totaltime (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>Test that xtc/trr unitcell is read correctly (Issue 34) ... ok
>test_velocities (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_volume (MDAnalysisTests.coordinates.test_xdr.TestTRRReader) ... ok
>test_empty_TypeError (MDAnalysisTests.test_atomgroup.TestAsUniverse) ... ok
>test_makeuni (MDAnalysisTests.test_atomgroup.TestAsUniverse) ... ok
>test_passback (MDAnalysisTests.test_atomgroup.TestAsUniverse) ... ok
>test_atomgroups (MDAnalysisTests.test_altloc.TestAltloc) ... ok
>test_bonds (MDAnalysisTests.test_altloc.TestAltloc) ... ok
>test_write_read (MDAnalysisTests.test_altloc.TestAltloc) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_eq ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_geq ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_gt ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_leq ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_lt ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_neq ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_sorting_1 ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_sorting_2 ... ok
>MDAnalysisTests.test_atomgroup.TestAtomComparisons.test_sorting_3 ... ok
>test_add_AG (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_atom_centroid (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_atom_selection (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_attributes_names (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_attributes_pos (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_attributes_positions (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_bad_add (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_bonded_atoms (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_hierarchy (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_no_uni (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_no_velo (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_set_undefined_occupancy (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_undefined_occupancy (MDAnalysisTests.test_atomgroup.TestAtom) ... ok
>test_atom_cachesize_change (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_atomcache_use (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_clear_cache (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_noangles (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_nobonds (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_nodihedrals (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_noimps (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_rebuild_atomcache (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_rebuild_atomcache_no (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_rebuild_cache_residues (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_rebuild_cache_segments (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>test_set_dimensions (MDAnalysisTests.test_atomgroup.TestAtomGroupNoTop) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('name', 'names') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('name', 'names') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('name', 'names', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('name', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('name', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_names of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('resid', 'resids') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('resid', 'resids') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('resid', 'resids', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('resid', [4, 6, 8, 1, 5, 4], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('resid', [4, 6, 8, 1, 5, 4], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_resids of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('segid', 'segids') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('segid', 'segids') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('segid', 'segids', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('segid', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('segid', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_segids of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('type', 'types') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('type', 'types') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('type', 'types', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('type', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('type', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_types of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('altLoc', 'altLocs') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('altLoc', 'altLocs') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('altLoc', 'altLocs', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('altLoc', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('altLoc', ['A', 'B', 'C', 'D', 'E', 'F'], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_altLocs of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('serial', 'serials') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('serial', 'serials') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('serial', 'serials', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('serial', [4, 6, 8, 1, 5, 4], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('serial', [4, 6, 8, 1, 5, 4], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_serials of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('charge', 'charges') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('charge', 'charges') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('charge', 'charges', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('charge', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('charge', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_charges of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('mass', 'masses') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('mass', 'masses') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('mass', 'masses', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('mass', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('mass', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_masses of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('radius', 'radii') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('radius', 'radii') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('radius', 'radii', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('radius', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('radius', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_radii of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('bfactor', 'bfactors') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('bfactor', 'bfactors') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('bfactor', 'bfactors', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('bfactor', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('bfactor', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_bfactors of <AtomGroup with 6 atoms>>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('occupancy', 'occupancies') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('occupancy', 'occupancies') ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('occupancy', 'occupancies', <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('occupancy', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestAtomGroupProperties.test_attributes('occupancy', [0.001, 0.002, 0.003, 0.005, 0.012, 0.025], <AtomGroup with 6 atoms>, <bound method AtomGroup.set_occupancies of <AtomGroup with 6 atoms>>) ... ok
>test_partial_timestep (MDAnalysisTests.test_atomgroup.TestAtomGroupTimestep) ... ERROR
>test_single_frame_CRD (MDAnalysisTests.coordinates.test_xdr.TestXTCWriterSingleFrame) ... ok
>test_single_frame_GRO (MDAnalysisTests.coordinates.test_xdr.TestXTCWriterSingleFrame) ... ok
>test_single_frame_PDB (MDAnalysisTests.coordinates.test_xdr.TestXTCWriterSingleFrame) ... ok
>test_force_fail (MDAnalysisTests.test_atomgroup.TestAtomNoForceNoVel) ... ok
>test_force_set_fail (MDAnalysisTests.test_atomgroup.TestAtomNoForceNoVel) ... ok
>test_velocity_fail (MDAnalysisTests.test_atomgroup.TestAtomNoForceNoVel) ... ok
>test_velocity_set_fail (MDAnalysisTests.test_atomgroup.TestAtomNoForceNoVel) ... ok
>MDAnalysisTests.test_atomgroup.TestCrossUniverse.test_add_mixed_universes(<AtomGroup with 2 atoms>, <AtomGroup with 3 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestCrossUniverse.test_add_mixed_universes(<AtomGroup with 2 atoms>, <Atom 1: OW of type O of resname SOL, resid 1 and segid SYSTEM>) ... ok
>MDAnalysisTests.test_atomgroup.TestCrossUniverse.test_add_mixed_universes(<Atom 4: OW of type O of resname SOL, resid 2 and segid SYSTEM>, <AtomGroup with 3 atoms>) ... ok
>MDAnalysisTests.test_atomgroup.TestCrossUniverse.test_add_mixed_universes(<Atom 4: OW of type O of resname SOL, resid 2 and segid SYSTEM>, <Atom 1: OW of type O of resname SOL, resid 1 and segid SYSTEM>) ... ok
>MDAnalysisTests.test_atomgroup.TestCrossUniverse.test_adding_empty_ags ... ok
>test_custom_both (MDAnalysisTests.test_atomgroup.TestCustomReaders) ... ERROR
>test_custom_parser (MDAnalysisTests.test_atomgroup.TestCustomReaders) ... ERROR
>test_custom_reader (MDAnalysisTests.test_atomgroup.TestCustomReaders) ... ERROR
>test_custom_reader_singleframe (MDAnalysisTests.test_atomgroup.TestCustomReaders) ... ok
>test_custom_reader_singleframe_2 (MDAnalysisTests.test_atomgroup.TestCustomReaders) ... ok
>test_get_velocities (MDAnalysisTests.test_atomgroup.TestAtomGroupVelocities) ... ok
>test_set_velocities (MDAnalysisTests.test_atomgroup.TestAtomGroupVelocities) ... ok
>test_velocities (MDAnalysisTests.test_atomgroup.TestAtomGroupVelocities) ... ok
>Test an atomgroup doing guess bonds ... ok
>test_atomgroup_guess_bonds_no_vdwradii (MDAnalysisTests.test_atomgroup.TestGuessBonds) ... ok
>test_atomgroup_guess_bonds_with_vdwradii (MDAnalysisTests.test_atomgroup.TestGuessBonds) ... ok
>Test that making a Universe with guess_bonds works ... ok
>Make a Universe that has atoms with unknown vdwradii. ... ok
>test_universe_guess_bonds_off (MDAnalysisTests.test_atomgroup.TestGuessBonds) ... ok
>Unknown atom types, but with vdw radii here to save the day ... ok
>MDAnalysisTests.test_atomgroup.TestOrphans.test_atom ... ok
>MDAnalysisTests.test_atomgroup.TestOrphans.test_atomgroup ... ok
>test_default (MDAnalysisTests.test_atomgroup.TestPBCFlag) ... ERROR
>test_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag) ... ERROR
>test_override_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag) ... ERROR
>test_pbcflag (MDAnalysisTests.test_atomgroup.TestPBCFlag) ... ERROR
>test_usepbc_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag) ... ERROR
>test_advanced_slicing (MDAnalysisTests.test_atomgroup.TestResidue) ... ok
>test_index (MDAnalysisTests.test_atomgroup.TestResidue) ... ok
>test_slicing (MDAnalysisTests.test_atomgroup.TestResidue) ... ok
>test_type (MDAnalysisTests.test_atomgroup.TestResidue) ... ok
>test_atom_lookup (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_atomgroup_lookup (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_fragment_coverage (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_make_fragDict (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_make_fragments (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_nobondsfail (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_single_fragment (MDAnalysisTests.test_atomgroup.TestFragments) ... ok
>test_EOFraisesIOErrorEIO (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_Writer (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_coordinates (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_dt (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_flag_convert_lengths (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_frame (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_get_Writer (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_jump_lastframe_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_jump_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_next_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_reverse_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_rewind_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_slice_xdrtrj (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_time (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_totaltime (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>Test that xtc/trr unitcell is read correctly (Issue 34) ... ok
>test_volume (MDAnalysisTests.coordinates.test_xdr.TestXTCReader) ... ok
>test_advanced_slicing (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_id (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_index (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_set_id (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_slicing (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_type (MDAnalysisTests.test_atomgroup.TestSegment) ... ok
>test_n_atoms (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_n_residues (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test that slicing a SegmentGroup returns a new SegmentGroup (Issue 135) ... ok
>test_resids_dim (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_resnums_dim (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_segids_dim (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_set_masses (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_set_resids (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_set_segid_ValueError (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_set_segid_updates_self (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_set_segids (MDAnalysisTests.test_atomgroup.TestSegmentGroup) ... ok
>test_add_to_cache (MDAnalysisTests.test_atomgroup.TestUniverseCache) ... ok
>test_clear_all (MDAnalysisTests.test_atomgroup.TestUniverseCache) ... ok
>test_remove_list (MDAnalysisTests.test_atomgroup.TestUniverseCache) ... ok
>test_remove_single (MDAnalysisTests.test_atomgroup.TestUniverseCache) ... ok
>testing that len(residuegroup) == residuegroup.n_residues ... ok
>test_merge_residues (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_n_atoms (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_n_residues (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test that slicing a ResidueGroup returns a new ResidueGroup ... ok
>test_resids_dim (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_resnums_dim (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_segids_dim (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_masses (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resid: set ResidueGroup resids on a per-residue basis ... ok
>test_set_resids_updates_self (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resname_ValueError (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resname_many (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resname_single (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resnum_ValueError (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resnum_many (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_set_resnum_single (MDAnalysisTests.test_atomgroup.TestResidueGroup) ... ok
>test_build_residues (MDAnalysisTests.test_atomgroup.TestUnorderedResidues) ... ok
>test_load (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_bad_topology (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_multiple_args (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_multiple_list (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_new (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_new_TypeError (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_new_permissive (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_new_strict (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_load_structure (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_pickle_raises_NotImplementedError (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_set_dimensions (MDAnalysisTests.test_atomgroup.TestUniverse) ... ok
>test_wrap_atoms (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_box_fail (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_cent_fail (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_comp_fail (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_fragments (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_group (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_residues (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_wrap_segments (MDAnalysisTests.test_atomgroup.TestWrap) ... ERROR
>test_angles_delete (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_bonds_delete (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_dihedrals_delete (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_impropers_delete (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_set_angles (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_set_bonds (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_set_dihedrals (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_set_impropers (MDAnalysisTests.test_atomgroup.TestUniverseSetTopology) ... ok
>test_write_Residue (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_ResidueGroup (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_Segment (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_Universe (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_atoms (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_empty_atomgroup (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>test_write_selection (MDAnalysisTests.test_atomgroup.TestWriteCRD) ... ok
>Test that an empty AtomGroup can be constructed (Issue 12) ... ok
>test_flag_convert_length (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_Residue (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_ResidueGroup (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_Segment (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_Universe (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_atoms (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_empty_atomgroup (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>test_write_selection (MDAnalysisTests.test_atomgroup.TestWriteGRO) ... ok
>Test that a generated residue group always returns a ResidueGroup (Issue 47) ... ok
>Test that instant selections work, even for residues that are also termini (Issue 70) ... ok
>MDAnalysisTests.test_atomselections.TestBondedSelection.test_nobonds_warns ... ok
>MDAnalysisTests.test_atomselections.TestBondedSelection.test_bonded_1 ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_segids ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_string_selections('name HT1 or name HT2 or name HT3', 'name HT1 HT2 HT3') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_string_selections('type 2 or type 3 or type 4', 'type 2 3 4') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_string_selections('resname MET or resname GLY', 'resname MET GLY') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_string_selections('name H* or name N', 'name H* N') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_string_selections('(name N or name HT1) and (resname MET or resname GLY)', 'name N HT1 and resname MET GLY') ... ok
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('kdtree', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('distmat', True) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('distmat', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_cyzone('distmat', True) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_cyzone('distmat', False) ... ERROR
>test_write_Residue (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_ResidueGroup (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_Segment (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_Universe (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_atoms (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_empty_atomgroup (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>test_write_selection (MDAnalysisTests.test_atomgroup.TestWritePDB) ... ok
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('kdtree', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('distmat', True) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('distmat', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('kdtree', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('distmat', True) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('distmat', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('kdtree', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('distmat', True) ... ERROR
>MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('distmat', False) ... ERROR
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1 or resid 2', 'resid 1 2') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1:10 or resid 22', 'resid 1:10 22') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1:10 or resid 20:30', 'resid 1:10 20:30') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1-5 or resid 7', 'resid 1-5 7') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1-5 or resid 7:10 or resid 12', 'resid 1-5 7:10 12') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resid 1 or resid 3 or resid 5:10', 'resid 1 3 5:10') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1 or resnum 2', 'resnum 1 2') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1:10 or resnum 22', 'resnum 1:10 22') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1:10 or resnum 20:30', 'resnum 1:10 20:30') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1-5 or resnum 7', 'resnum 1-5 7') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1-5 or resnum 7:10 or resnum 12', 'resnum 1-5 7:10 12') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('resnum 1 or resnum 3 or resnum 5:10', 'resnum 1 3 5:10') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1 or bynum 2', 'bynum 1 2') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1:10 or bynum 22', 'bynum 1:10 22') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1:10 or bynum 20:30', 'bynum 1:10 20:30') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1-5 or bynum 7', 'bynum 1-5 7') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1-5 or bynum 7:10 or bynum 12', 'bynum 1-5 7:10 12') ... ok
>MDAnalysisTests.test_atomselections.TestImplicitOr.test_range_selections('bynum 1 or bynum 3 or bynum 5:10', 'bynum 1 3 5:10') ... ok
>test_backbone (MDAnalysisTests.test_atomselections.TestSelectionsAMBER) ... ok
>test_protein (MDAnalysisTests.test_atomselections.TestSelectionsAMBER) ... ok
>test_resid_single (MDAnalysisTests.test_atomselections.TestSelectionsAMBER) ... ok
>test_type (MDAnalysisTests.test_atomselections.TestSelectionsAMBER) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('name and H',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('name )',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('resid abcd',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('resid 1-',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop chicken == tasty',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop chicken <= 7.4',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop mass ^^ 12.0',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('same this as resid 1',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('same resid resname mass 5.0',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('name H and',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('naem H',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('resid and name C',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('resnum ',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('bynum or protein',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop mass < 4.0 hello',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop mass > 10. and group this',) ... ok
>MDAnalysisTests.test_atomselections.TestSelectionErrors.test_expected_errors('prop mass > 10. and fullgroup this',) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('mass', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 47681 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>MDAnalysisTests.test_atomselections.TestPropSelection.test_props('charge', <AtomGroup with 100 atoms>) ... ok
>test_protein (MDAnalysisTests.test_atomselections.TestSelectionsNAMD) ... ok
>test_resid_single (MDAnalysisTests.test_atomselections.TestSelectionsNAMD) ... ok
>test_type (MDAnalysisTests.test_atomselections.TestSelectionsNAMD) ... ok
>test_nucleic (MDAnalysisTests.test_atomselections.TestSelectionsNucleicAcids) ... ok
>test_nucleic_all (MDAnalysisTests.test_atomselections.TestSelectionsNucleicAcids) ... ok
>test_nucleicbackbone (MDAnalysisTests.test_atomselections.TestSelectionsNucleicAcids) ... ok
>test_nucleicbase (MDAnalysisTests.test_atomselections.TestSelectionsNucleicAcids) ... ok
>test_nucleicsugar (MDAnalysisTests.test_atomselections.TestSelectionsNucleicAcids) ... ok
>test_angle (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_angle_ValueError (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_asphericity (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bad_add_AG (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bad_make (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bfactors (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bfactors_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bond (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bond_ValueError (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bond_pbc (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bool_IE (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bool_false (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_bool_true (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_boolean_indexing (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_boolean_indexing_2 (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_center_of_geometry (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_center_of_mass (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_ch1_sel_fail (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_charges (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_charges_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_chi1_selection (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_coordinates (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test that AtomGroup.dihedral() raises ValueError if not exactly ... ok
>test_dihedral_chi1 (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_dihedral_equals_improper (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_dihedral_omega (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_dihedral_phi (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_dihedral_psi (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_get_forces_NoData (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_TE (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_int (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_list (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_nparray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_slice (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_slice2 (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_getitem_str (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_improper (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_index_advancedslice (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_index_integer (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_index_slice (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_index_slice_empty (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_indices (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_indices_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>testing that len(atomgroup) == atomgroup.n_atoms ... ok
>test_masses (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_masses_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_merge_residues (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_n_atoms (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_n_residues (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_n_segments (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_names (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_names_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_newAtomGroup (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_no_uni_1 (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_no_uni_2 (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_no_velocities_raises_NoDataError (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_nonexistent_instantselector_raises_AttributeError (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_occupancies (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_omega_sel_fail (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_omega_selection (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test AtomGroup.pack_into_box(): Tests application of periodic boundary ... ok
>test_packintobox_badshape (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_packintobox_noshape (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_phi_sel_fail (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_phi_selection (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_positions (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_principal_axes (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_psi_sel_fail (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_psi_selection (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_radii (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_radii_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_repr (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resids (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resids_dim (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resids_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_residues (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resnames (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resnames_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resnums (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resnums_dim (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_resnums_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_segids (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_segids_dim (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_segids_ndarray (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_segments (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_sequence_Seq (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_sequence_SeqRecord (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_sequence_SeqRecord_default (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_sequence_from_atoms (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_sequence_nonIUPACresname: non recognized amino acids raise ... ok
>test_sequence_string (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_bfactors (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_charges (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_forces_NoData (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_masses (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_names (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_positions (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_radii (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_resid: set AtomGroup resids on a per-atom basis ... ok
>test_set_resname_many (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_resname_single (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_resnum_many (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_resnum_single (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_segids (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_set_velocities_NoData (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_shape_parameter (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_split_atoms (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_split_residues (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_split_segments (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_total_charge (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>test_total_mass (MDAnalysisTests.test_atomgroup.TestAtomGroup) ... ok
>Give the setter function a list of wrong length ... ok
>Test the 'same ... as' construct (Issue 217) ... ok
>test_and (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_around (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_atom (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_atom_empty (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_backbone (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>Tests the bynum selection, also from AtomGroup instances (Issue 275) ... ok
>test_byres (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_concatenated_selection (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_cylayer (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_cyzone (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_empty_same (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>Test that empty selection can be processed (see Issue 12) ... ok
>test_fullselgroup (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>Test the `global` modifier keyword (Issue 268) ... ok
>test_name (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>Test that no space is needed around parentheses (Issue 43). ... ok
>test_not (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_or (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_parenthesized_expression (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_point (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_prop (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_protein (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_resid_range (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_resid_single (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_resname (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_resnum_range (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_resnum_single (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>Test the 'same ... as' construct (Issue 217) ... ok
>Test the 'same ... as' construct (Issue 217) ... ok
>test_segid (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_selgroup (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_sphlayer (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_sphzone (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>test_type (MDAnalysisTests.test_atomselections.TestSelectionsCHARMM) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_around('kdtree', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_around('distmat', True) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_around('distmat', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_point('kdtree', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_point('distmat', True) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_point('distmat', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicSelections.test_around ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_layer('kdtree', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_layer('distmat', True) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_layer('distmat', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicSelections.test_point_1 ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicSelections.test_point_2 ... ok
>test_atom (MDAnalysisTests.test_atomselections.TestSelectionsGRO) ... ok
>test_backbone (MDAnalysisTests.test_atomselections.TestSelectionsGRO) ... ok
>Cylinder layer selections with tricilinic periodicity (Issue 274) ... ok
>Cylinder zone selections with tricilinic periodicity (Issue 274) ... ok
>test_protein (MDAnalysisTests.test_atomselections.TestSelectionsGRO) ... ok
>test_resid_single (MDAnalysisTests.test_atomselections.TestSelectionsGRO) ... ok
>Test the 'same ... as' construct (Issue 217) ... ok
>test_type (MDAnalysisTests.test_atomselections.TestSelectionsGRO) ... ok
>MDAnalysisTests.test_atomselections.test_segid_and_resid ... ok
>MDAnalysisTests.test_datafiles.TestDatafiles.test_all_exports ... ok
>MDAnalysisTests.test_datafiles.TestDatafiles.test_export_variables ... ok
>MDAnalysisTests.test_datafiles.TestDatafiles.test_import ... ok
>test_KDTree (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_distances (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_log (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_qcprot (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_transformations (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_units (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_core_util (MDAnalysisTests.test_deprecated.TestImports) ... ok
>test_angles (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_angles_bad_result (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_angles_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_bonds (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_bonds_badbox (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_bonds_badresult (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_bonds_triclinic (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_bonds_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_dihedrals (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_dihedrals_bad_result (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_dihedrals_wronglength (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_dihedrals_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>test_numpy_compliance (MDAnalysisTests.test_distances.TestCythonFunctions_OpenMP) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_zone('kdtree', False) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_zone('distmat', True) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicDistanceSelections.test_spherical_zone('distmat', False) ... ok
>test_angles (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_angles_bad_result (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_angles_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_bonds (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_bonds_badbox (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_bonds_badresult (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_bonds_triclinic (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_bonds_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_dihedrals (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_dihedrals_bad_result (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_dihedrals_wronglength (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_dihedrals_wrongtype (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_numpy_compliance (MDAnalysisTests.test_distances.TestCythonFunctions_Serial) ... ok
>test_outarray (MDAnalysisTests.test_distances.TestDistanceArrayDCD_Serial) ... ok
>test_periodic (MDAnalysisTests.test_distances.TestDistanceArrayDCD_Serial) ... ok
>test_simple (MDAnalysisTests.test_distances.TestDistanceArrayDCD_Serial) ... ok
>test_PBC (MDAnalysisTests.test_distances.TestDistanceArray_OpenMP) ... ok
>test_PBC2 (MDAnalysisTests.test_distances.TestDistanceArray_OpenMP) ... ok
>test_noPBC (MDAnalysisTests.test_distances.TestDistanceArray_OpenMP) ... ok
>test_PBC (MDAnalysisTests.test_distances.TestDistanceArray_Serial) ... ok
>test_PBC2 (MDAnalysisTests.test_distances.TestDistanceArray_Serial) ... ok
>test_noPBC (MDAnalysisTests.test_distances.TestDistanceArray_Serial) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('serial',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('Serial',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('SeRiAL',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('SERIAL',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('openmp',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('OpenMP',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('oPENmP',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_case_insensitivity('OPENMP',) ... ok
>MDAnalysisTests.test_distances.TestDistanceBackendSelection.test_missing_backend_raises_ValueError ... ok
>test_angles (MDAnalysisTests.test_distances.TestPeriodicAngles_OpenMP) ... ok
>test_dihedrals (MDAnalysisTests.test_distances.TestPeriodicAngles_OpenMP) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicSelections.test_sphlayer ... ok
>test_angles (MDAnalysisTests.test_distances.TestPeriodicAngles_Serial) ... ok
>test_dihedrals (MDAnalysisTests.test_distances.TestPeriodicAngles_Serial) ... ok
>MDAnalysisTests.test_atomselections.TestTriclinicSelections.test_sphzone ... ok
>test_outarray (MDAnalysisTests.test_distances.TestDistanceArrayDCD_OpenMP) ... ok
>test_periodic (MDAnalysisTests.test_distances.TestDistanceArrayDCD_OpenMP) ... ok
>test_simple (MDAnalysisTests.test_distances.TestDistanceArrayDCD_OpenMP) ... ok
>test_outarray (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_OpenMP) ... ok
>test_periodic (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_OpenMP) ... ok
>test_simple (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_OpenMP) ... ok
>MDAnalysisTests.test_imports.TestRelativeImports.test_relative_imports('./setup.py',) ... ok
>test_distarray (MDAnalysisTests.test_distances.TestTriclinicDistances_Serial) ... ok
>test_pbc_dist (MDAnalysisTests.test_distances.TestTriclinicDistances_Serial) ... ok
>test_selfdist (MDAnalysisTests.test_distances.TestTriclinicDistances_Serial) ... ok
>test_transforms (MDAnalysisTests.test_distances.TestTriclinicDistances_Serial) ... ok
>test_distarray (MDAnalysisTests.test_distances.TestTriclinicDistances_OpenMP) ... ok
>test_pbc_dist (MDAnalysisTests.test_distances.TestTriclinicDistances_OpenMP) ... ok
>test_selfdist (MDAnalysisTests.test_distances.TestTriclinicDistances_OpenMP) ... ok
>test_transforms (MDAnalysisTests.test_distances.TestTriclinicDistances_OpenMP) ... ok
>test_angle_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_atom_number (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_bond_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>Check that get_parser returns the intended parser ... ok
>test_dihedral_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_improper_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_n_angles (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_n_bonds (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_n_dihedrals (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_n_impropers (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD) ... ok
>test_angle_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_atom_number (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_bond_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_correct_parser (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_dihedral_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_improper_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_n_angles (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_n_bonds (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_n_dihedrals (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_n_impropers (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_lammpsdata.TestLAMMPSHYD2) ... ok
>test_outarray (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_Serial) ... ok
>test_periodic (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_Serial) ... ok
>test_simple (MDAnalysisTests.test_distances.TestSelfDistanceArrayDCD_Serial) ... ok
>test_start_stop_logging (MDAnalysisTests.test_log.TestLogging) ... ok
>test_custom_ProgressMeter (MDAnalysisTests.test_log.TestProgressMeter) ... ok
>test_default_ProgressMeter (MDAnalysisTests.test_log.TestProgressMeter) ... ok
>MDAnalysisTests.test_meta.test_import ... ok
>MDAnalysisTests.test_meta.test_matching_versions ... ok
>MDAnalysisTests.test_meta.test_version_format ... ok
>MDAnalysisTests.test_meta.test_version_at_packagelevel ... ok
>test_capping_file (MDAnalysisTests.test_modelling.TestCapping) ... ok
>test_capping_inmemory (MDAnalysisTests.test_modelling.TestCapping) ... ok
>test_angle_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_atom_number (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_bond_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_correct_parser (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_dihedral_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_improper_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_n_angles (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_n_bonds (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_n_dihedrals (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_n_impropers (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT2) ... ok
>test_angle_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_atom_number (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_bond_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>Check that get_parser returns the intended parser ... ok
>test_dihedral_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_improper_member (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_n_angles (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_n_bonds (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_n_dihedrals (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>test_n_impropers (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_lammpsdata.TestLAMMPSCNT) ... ok
>MDAnalysisTests.test_modelling.TestMergeTopology.test_merge_with_topology ... ok
>test_hydroxyl (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>test_major_pair (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>test_minor_pair (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>test_pseudo_dihe_baseflip (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>test_torsions (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>test_wc_pair (MDAnalysisTests.test_nuclinfo.TestNuclinfo) ... ok
>MDAnalysisTests.test_modelling.TestMergeTopology.test_merge_without_topology ... ok
>Test that an empty AtomGroup can be pickled/unpickled (Issue 293) ... ok
>MDAnalysisTests.test_qcprot.test_CalcRMSDRotationalMatrix ... ok
>test_write_str (MDAnalysisTests.test_selections.TestSelectionWriter_Charmm) ... ok
>test_writeselection_str (MDAnalysisTests.test_selections.TestSelectionWriter_Charmm) ... ok
>test_emptyAG_ValueError (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_empty_ValueError (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_merge (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_nonsense_TypeError (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_residue_references (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_segment_references (MDAnalysisTests.test_modelling.TestMerge) ... ok
>test_write_ndx (MDAnalysisTests.test_selections.TestSelectionWriter_Gromacs) ... ok
>test_writeselection_ndx (MDAnalysisTests.test_selections.TestSelectionWriter_Gromacs) ... ok
>test_write_spt (MDAnalysisTests.test_selections.TestSelectionWriter_Jmol) ... ok
>test_writeselection_spt (MDAnalysisTests.test_selections.TestSelectionWriter_Jmol) ... ok
>test_write_pml (MDAnalysisTests.test_selections.TestSelectionWriter_PyMOL) ... ok
>test_writeselection_pml (MDAnalysisTests.test_selections.TestSelectionWriter_PyMOL) ... ok
>test_StringIO_read (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_StringIO_write (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_cStringIO_read (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_cStringIO_write (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_file (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_hasmethod (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_iterator (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_list (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_string (MDAnalysisTests.test_streamio.TestIsstream) ... ok
>test_File_read (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>test_File_write (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>test_cStringIO_read (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>test_cStringIO_write (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>test_closing (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>test_closing_force (MDAnalysisTests.test_streamio.TestNamedStream) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_add ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_expanduser_noexpansion_returns_NamedStream ... SKIP: Skipping test: test_expanduser_noexpansion_returns_NamedStream: Test skipped due to test condition
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_expandvars ... SKIP: Skipping test: test_expandvars: Test skipped due to test condition
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_expandvars_noexpansion_returns_NamedStream ... SKIP: Skipping test: test_expandvars_noexpansion_returns_NamedStream: Test skipped due to test condition
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('abspath',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('basename',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('dirname',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('expanduser',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('normpath',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('relpath',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('split',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('splitext',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_ospath_funcs('join',) ... ok
>MDAnalysisTests.test_streamio.TestNamedStream_filename_behavior.test_radd ... ok
>test_write_vmd (MDAnalysisTests.test_selections.TestSelectionWriter_VMD) ... ok
>test_writeselection_vmd (MDAnalysisTests.test_selections.TestSelectionWriter_VMD) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestAMBER) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestAMBER) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestAMBER12) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestAMBER12) ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_element('CA', 'CAL') ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_element('CA', 'CA2+') ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_element('CA', 'C0') ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_type('CA', 'CAL') ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_type('CA', 'CA2+') ... ok
>MDAnalysisTests.test_topology.TestCalcium.test_guess_atom_type('CA', 'C0') ... ok
>MDAnalysisTests.test_topology.TestCarbon.test_guess_atom_element('C', 'C') ... ok
>MDAnalysisTests.test_topology.TestCarbon.test_guess_atom_element('C', 'CA') ... ok
>MDAnalysisTests.test_topology.TestCarbon.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestCarbon.test_guess_atom_type('C', 'C') ... ok
>MDAnalysisTests.test_topology.TestCarbon.test_guess_atom_type('C', 'CA') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_element('CL', 'CL') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_element('CL', 'CL-') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_element('CL', 'CLA') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_element('CL', 'CLAL') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_type('CL', 'CL') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_type('CL', 'CL-') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_type('CL', 'CLA') ... ok
>MDAnalysisTests.test_topology.TestChloride.test_guess_atom_type('CL', 'CLAL') ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigMinimal.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigMinimal.test_usage ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigOrder.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigOrder.test_usage ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigParser.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyConfigParser.test_usage ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryMinimal.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryMinimal.test_usage ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryOrder.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryOrder.test_usage ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryParser.test_names ... ok
>MDAnalysisTests.test_topology.TestDLPolyHistoryParser.test_usage ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>test_atomsels (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>test_bond_order (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>Check that get_parser returns the intended parser ... ok
>test_number_of_bonds (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>test_segid (MDAnalysisTests.test_topology.TestDMSReader) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestGMS_noSymmetry) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestGMS_noSymmetry) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestGMS_withSymmetry) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestGMS_withSymmetry) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestHoomdXML) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestHoomdXML) ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_element('H', 'H') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_element('H', 'HZ') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_element('H', '1HZ') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_element('H', '2HW') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_element('H', 'HE') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_type('H', 'H') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_type('H', 'HZ') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_type('H', '1HZ') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_type('H', '2HW') ... ok
>MDAnalysisTests.test_topology.TestHydrogen.test_guess_atom_type('H', 'HE') ... ok
>MDAnalysisTests.test_topology.TestMagnesium.test_guess_atom_element('MG', 'MG') ... ok
>MDAnalysisTests.test_topology.TestMagnesium.test_guess_atom_element('MG', 'MG2+') ... ok
>MDAnalysisTests.test_topology.TestMagnesium.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestMagnesium.test_guess_atom_type('MG', 'MG') ... ok
>MDAnalysisTests.test_topology.TestMagnesium.test_guess_atom_type('MG', 'MG2+') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_element('N', 'N') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_element('N', 'NZ') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_element('N', 'NE') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_type('N', 'N') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_type('N', 'NZ') ... ok
>MDAnalysisTests.test_topology.TestNitrogen.test_guess_atom_type('N', 'NE') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_element('O', 'O') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_element('O', 'OA') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_element('O', 'OXT') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_element('O', '1OG') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_element('O', 'OW') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_type('O', 'O') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_type('O', 'OA') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_type('O', 'OXT') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_type('O', '1OG') ... ok
>MDAnalysisTests.test_topology.TestOxygen.test_guess_atom_type('O', 'OW') ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestPDB) ... ok
>test_conect_parser (MDAnalysisTests.test_topology.TestPDB) ... ok
>Check that the parser works as intended, ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestPDB) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestPDB_Perm) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestPDB_Perm) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestPSF_CHARMM_STANDARD) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestPSF_CHARMM_STANDARD) ... ok
>test_nosegid (MDAnalysisTests.test_topology.TestPSF_Issue121) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestPSF_NAMD_CGENFF) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestPSF_NAMD_CGENFF) ... ok
>test_CRDReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_GROReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_MOL2Reader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_PDBQTReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_PDBReader (MDAnalysisTests.test_streamio.TestStreamIO) ... KNOWNFAIL: Test skipped due to expected failure
>-------------------- >> begin captured stderr << ---------------------
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT1' for Atom (name=HT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT2' for Atom (name=HT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HT3' for Atom (name=HT3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'SG' for Atom (name=SG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ' for Atom (name=HZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND1' for Atom (name=ND1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NE2' for Atom (name=NE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HE22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'SD' for Atom (name=SD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE3' for Atom (name=HE3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG' for Atom (name=OG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'ND2' for Atom (name=ND2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE1' for Atom (name=CE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OH' for Atom (name=OH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HH' for Atom (name=HH) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CE2' for Atom (name=CE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OG1' for Atom (name=OG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'NE' for Atom (name=NE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HE' for Atom (name=HE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CZ' for Atom (name=CZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH1' for Atom (name=NH1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NH2' for Atom (name=NH2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HH22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB3' for Atom (name=HB3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD1' for Atom (name=OD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OD2' for Atom (name=OD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE1' for Atom (name=OE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OE2' for Atom (name=OE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG1' for Atom (name=HG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HG2' for Atom (name=HG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CE' for Atom (name=CE) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE1' for Atom (name=HE1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HE2' for Atom (name=HE2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'NZ' for Atom (name=NZ) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ1' for Atom (name=HZ1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ2' for Atom (name=HZ2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HZ3' for Atom (name=HZ3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB' for Atom (name=HB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG2' for Atom (name=CG2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG1' for Atom (name=CG1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HG12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CD' for Atom (name=CD) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD1' for Atom (name=HD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD2' for Atom (name=HD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HD3' for Atom (name=HD3) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA' for Atom (name=HA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CB' for Atom (name=CB) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB1' for Atom (name=HB1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HB2' for Atom (name=HB2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CG' for Atom (name=CG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'HG' for Atom (name=HG) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD1' for Atom (name=CD1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD11) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD12) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD13) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'CD2' for Atom (name=CD2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD21) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD22) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'H' for Atom (name=HD23) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'O' for Atom (name=O) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'N' for Atom (name=N) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HN' for Atom (name=HN) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'CA' for Atom (name=CA) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA1' for Atom (name=HA1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'HA2' for Atom (name=HA2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Used element 'C' for Atom (name=C) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT1' for Atom (name=OT1) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>/usr/lib64/python2.7/site-packages/Bio/PDB/Atom.py:98: PDBConstructionWarning: Could not assign element 'OT2' for Atom (name=OT2) with given element ''
>  warnings.warn(msg, PDBConstructionWarning)
>--------------------- >> end captured stderr << ----------------------
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/adk_open.pdb...
>--------------------- >> end captured logging << ---------------------
>test_PQRReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_PSFParser (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_PSF_CRD (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_PrimitivePDBReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>test_XYZReader (MDAnalysisTests.test_streamio.TestStreamIO) ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_element('P', 'P') ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_element('P', 'PL') ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_element('P', 'PO') ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_type('P', 'P') ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_type('P', 'PL') ... ok
>MDAnalysisTests.test_topology.TestPhosphorous.test_guess_atom_type('P', 'PO') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_element('K', 'K') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_element('K', 'K+') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_element('K', 'POT') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_element('K', 'QK') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_type('K', 'K') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_type('K', 'K+') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_type('K', 'POT') ... ok
>MDAnalysisTests.test_topology.TestPotassium.test_guess_atom_type('K', 'QK') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_element('NA', 'NA') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_element('NA', 'NA+') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_element('NA', 'SOD') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_element('NA', 'QN') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_type('NA', 'NA') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_type('NA', 'NA+') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_type('NA', 'SOD') ... ok
>MDAnalysisTests.test_topology.TestSodium.test_guess_atom_type('NA', 'QN') ... ok
>MDAnalysisTests.test_topology.TestSulfur.test_guess_atom_element('S', 'S') ... ok
>MDAnalysisTests.test_topology.TestSulfur.test_guess_atom_element('S', 'SG') ... ok
>MDAnalysisTests.test_topology.TestSulfur.test_guess_atom_mass ... ok
>MDAnalysisTests.test_topology.TestSulfur.test_guess_atom_type('S', 'S') ... ok
>MDAnalysisTests.test_topology.TestSulfur.test_guess_atom_type('S', 'SG') ... ok
>Test that an AtomGroup can be unpickled (Issue 293) ... ok
>test_unpickle_missing (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>Test that an AtomGroup can be unpickled (Issue 293) ... ok
>test_unpickle_noanchor (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>test_unpickle_reanchor (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>test_unpickle_reanchor_other (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>test_unpickle_rename (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>test_unpickle_wrongname (MDAnalysisTests.test_persistence.TestAtomGroupPickle) ... ok
>test_angles_counts (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_angles_identity (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_bonds_counts (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_bonds_identity (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_dihedrals_counts (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_dihedrals_identity (MDAnalysisTests.test_topology.TestPSF_bonds) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestTPRParser) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestTPRParser) ... ok
>test_angle_member (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_atom_number (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_bond_member (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_charge (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>Check that get_parser returns the intended parser ... ok
>test_dihedral_member (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_improper_member (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_masses (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_n_angles (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_n_bonds (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_n_dihedrals (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_n_impropers (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_resid (MDAnalysisTests.test_lammpsdata.TestLammpsData) ... ok
>test_right_type_angles (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_right_type_bonds (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_right_type_dihedrals (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_right_type_impropers (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_wrong_type_angles (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_wrong_type_bonds (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_wrong_type_dihedrals (MDAnalysisTests.test_topology.TestTopologyGroup_Cython) ... ok
>test_atom_number (MDAnalysisTests.test_topology.TestXYZTopology) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_topology.TestXYZTopology) ... ok
>test_segments (MDAnalysisTests.test_topology.TestXYZTopology) ... ok
>Issue #476 ... ok
>test_guess_angles (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_angles_set (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_bonds_badtype (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_bonds_withag (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_bonds_withlist (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_bonds_wronginput (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_dihedrals (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_dihedrals_set (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_improper_dihedrals (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_guess_impropers_set (MDAnalysisTests.test_topology.TestTopologyGuessers) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR400) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR400) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR402) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR402) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR403) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR403) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR404) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR404) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR405) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR405) ... ok
>test_angle (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_bondlength (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_bondrepr (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_dihedral (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_eq (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_gt (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_improper (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_indices (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_isguessed (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_iter (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_len (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_lt (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_ne (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_partner (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_repr (MDAnalysisTests.test_topology.TestTopologyObjects) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR406) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR406) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR407) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR407) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR450) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR450) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR451) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR451) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR452) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR452) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR453) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR453) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR454) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR454) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR455) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR455) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR455Double) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR455Double) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR502) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR502) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR460) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR460) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR461) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR461) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR504) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR504) ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>Test that all bond types are parsed as expected ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('UREY_BRADLEY', [(4, 5, 6)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('QANGLES', [(5, 6, 7)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('ANGLES', [(0, 1, 2)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('G96ANGLES', [(1, 2, 3)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('RESTRANGLES', [(6, 7, 8)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('TABANGLES', [(7, 8, 9)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('CROSS_BOND_BOND', [(2, 3, 4)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_angles('CROSS_BOND_ANGLE', [(3, 4, 5)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('RESTRDIHS', [(8, 9, 10, 11)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('TABDIHS', [(10, 11, 12, 13)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('PDIHS', [(0, 1, 2, 3), (1, 2, 3, 4), (7, 8, 9, 10)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('CBTDIHS', [(9, 10, 11, 12)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('RBDIHS', [(4, 5, 6, 7)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_dihedrals('FOURDIHS', [(6, 7, 8, 9)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_impropers('PIDIHS', [(5, 6, 7, 8)]) ... ok
>MDAnalysisTests.test_tprparser.test_all_impropers('IDIHS', [(2, 3, 4, 5), (3, 4, 5, 6)]) ... ok
>MDAnalysisTests.test_transformations.TestArcBall.test_arcball_1 ... ok
>MDAnalysisTests.test_transformations.TestArcBall.test_arcball_2 ... ok
>MDAnalysisTests.test_transformations.TestClipMatrixCy.test_clip_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestClipMatrixCy.test_clip_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestClipMatrixNP.test_clip_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestClipMatrixNP.test_clip_matrix_2 ... ok
>test_decompose_matrix_1 (MDAnalysisTests.test_transformations.TestDecomposeMatrix) ... ok
>test_decompose_matrix_2 (MDAnalysisTests.test_transformations.TestDecomposeMatrix) ... ok
>test_decompose_matrix_3 (MDAnalysisTests.test_transformations.TestDecomposeMatrix) ... ok
>MDAnalysisTests.test_transformations.TestEulerFromMatrixCy.test_euler_from_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestEulerFromMatrixCy.test_euler_from_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestEulerFromMatrixNP.test_euler_from_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestEulerFromMatrixNP.test_euler_from_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestEulerMatrixCy.test_euler_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestEulerMatrixCy.test_euler_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestEulerMatrixNP.test_euler_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestEulerMatrixNP.test_euler_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestIdentityMatrixCy.test_identity_matrix ... ok
>MDAnalysisTests.test_transformations.TestIdentityMatrixNP.test_identity_matrix ... ok
>MDAnalysisTests.test_transformations.TestInverseMatrixCy.test_inverse_matrix ... ok
>MDAnalysisTests.test_transformations.TestInverseMatrixNP.test_inverse_matrix ... ok
>MDAnalysisTests.test_transformations.TestIsSameTransformCy.test_is_same_transform_1 ... ok
>MDAnalysisTests.test_transformations.TestIsSameTransformCy.test_is_same_transform_2 ... ok
>MDAnalysisTests.test_transformations.TestIsSameTransformNP.test_is_same_transform_1 ... ok
>MDAnalysisTests.test_transformations.TestIsSameTransformNP.test_is_same_transform_2 ... ok
>MDAnalysisTests.test_transformations.TestOrthogonalizationMatrixCy.test_orthogonalization_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestOrthogonalizationMatrixCy.test_orthogonalization_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestOrthogonalizationMatrixNP.test_orthogonalization_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestOrthogonalizationMatrixNP.test_orthogonalization_matrix_2 ... ok
>test_projection_from_matrix_1 (MDAnalysisTests.test_transformations.TestProjectionFromMatrix) ... ok
>test_projection_from_matrix_2 (MDAnalysisTests.test_transformations.TestProjectionFromMatrix) ... ok
>test_projection_from_matrix_3 (MDAnalysisTests.test_transformations.TestProjectionFromMatrix) ... ok
>test_projection_from_matrix_4 (MDAnalysisTests.test_transformations.TestProjectionFromMatrix) ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixCy.test_projection_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixCy.test_projection_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixCy.test_projection_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixNP.test_projection_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixNP.test_projection_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestProjectionMatrixNP.test_projection_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionAboutAxisCy.test_quaternion_about_axis ... ok
>MDAnalysisTests.test_transformations.TestQuaternionAboutAxisNP.test_quaternion_about_axis ... ok
>MDAnalysisTests.test_transformations.TestQuaternionConjugateCy.test_quaternion_conjugate ... ok
>MDAnalysisTests.test_transformations.TestQuaternionConjugateNP.test_quaternion_conjugate ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromEulerCy.test_quaternion_from_euler ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromEulerNP.test_quaternion_from_euler ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_4 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_5 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixCy.test_quaternion_from_matrix_6 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_4 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_5 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionFromMatrixNP.test_quaternion_from_matrix_6 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionInverseCy.test_quaternion_inverse ... ok
>MDAnalysisTests.test_transformations.TestQuaternionInverseNP.test_quaternion_inverse ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixCy.test_quaternion_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixCy.test_quaternion_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixCy.test_quaternion_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixNP.test_quaternion_matrix_1 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixNP.test_quaternion_matrix_2 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMatrixNP.test_quaternion_matrix_3 ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMultiplyCy.test_quaternion_multiply ... ok
>MDAnalysisTests.test_transformations.TestQuaternionMultiplyNP.test_quaternion_multiply ... ok
>MDAnalysisTests.test_transformations.TestQuaternionSlerpCy.test_quaternion_slerp ... ok
>MDAnalysisTests.test_transformations.TestQuaternionSlerpNP.test_quaternion_slerp ... ok
>MDAnalysisTests.test_transformations.TestRandomQuaternionCy.test_random_quaternion_1 ... ok
>MDAnalysisTests.test_transformations.TestRandomQuaternionCy.test_random_quaternion_2 ... ok
>MDAnalysisTests.test_transformations.TestRandomQuaternionNP.test_random_quaternion_1 ... ok
>MDAnalysisTests.test_transformations.TestRandomQuaternionNP.test_random_quaternion_2 ... ok
>MDAnalysisTests.test_transformations.TestRandomRotationMatrixCy.test_random_rotation_matrix ... ok
>MDAnalysisTests.test_transformations.TestRandomRotationMatrixNP.test_random_rotation_matrix ... ok
>MDAnalysisTests.test_transformations.TestRandomVectorCy.test_random_vector_1 ... ok
>MDAnalysisTests.test_transformations.TestRandomVectorCy.test_random_vector_2 ... ok
>MDAnalysisTests.test_transformations.TestRandomVectorNP.test_random_vector_1 ... ok
>MDAnalysisTests.test_transformations.TestRandomVectorNP.test_random_vector_2 ... ok
>MDAnalysisTests.test_transformations.TestReflectionMatrixCy.test_reflection_matrix ... ok
>MDAnalysisTests.test_transformations.TestReflectionMatrixNP.test_reflection_matrix ... ok
>MDAnalysisTests.test_transformations.TestRotationMatrixCy.test_rotation_matrix ... ok
>MDAnalysisTests.test_transformations.TestRotationMatrixNP.test_rotation_matrix ... ok
>MDAnalysisTests.test_transformations.TestScaleMatrixCy.test_scale_matrix ... ok
>MDAnalysisTests.test_transformations.TestScaleMatrixNP.test_scale_matrix ... ok
>MDAnalysisTests.test_transformations.TestShearMatrixCy.test_shear_matrix ... ok
>MDAnalysisTests.test_transformations.TestShearMatrixNP.test_shear_matrix ... ok
>MDAnalysisTests.test_transformations.TestSuperimpositionMatrixCy.test_superimposition_matrix ... ok
>MDAnalysisTests.test_transformations.TestSuperimpositionMatrixNP.test_superimposition_matrix ... ok
>MDAnalysisTests.test_transformations.TestTranslationMatrixCy.test_translation_matrix ... ok
>MDAnalysisTests.test_transformations.TestTranslationMatrixNP.test_translation_matrix ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_1 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_2 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_3 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_4 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_5 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorCy.test_unit_vector_6 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_1 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_2 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_3 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_4 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_5 ... ok
>MDAnalysisTests.test_transformations.TestUnitVectorNP.test_unit_vector_6 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_1 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_2 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_3 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_4 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_5 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormCy.test_vector_norm_6 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_1 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_2 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_3 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_4 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_5 ... ok
>MDAnalysisTests.test_transformations.TestVectorNormNP.test_vector_norm_6 ... ok
>MDAnalysisTests.test_transformations.test_translation_from_matrix ... ok
>MDAnalysisTests.test_transformations.test_reflection_from_matrix ... ok
>MDAnalysisTests.test_transformations.test_rotation_from_matrix ... ok
>MDAnalysisTests.test_transformations.test_scale_from_matrix ... ok
>MDAnalysisTests.test_transformations.test_shear_from_matrix ... ok
>MDAnalysisTests.test_transformations.test_compose_matrix ... ok
>MDAnalysisTests.test_transformations.test_euler_from_quaternion ... ok
>MDAnalysisTests.test_transformations.test_quaternion_real ... ok
>MDAnalysisTests.test_transformations.test_quaternion_imag ... ok
>test that MDAnalysis.core.transformations is still importable (deprecated for 1.0) ... ok
>MDAnalysisTests.test_units.TestConstants.test_constant(u'elementary_charge', 1.602176565e-19) ... ok
>MDAnalysisTests.test_units.TestConstants.test_constant(u'N_Avogadro', 6.02214129e+23) ... ok
>MDAnalysisTests.test_units.TestConstants.test_constant(u'calorie', 4.184) ... ok
>MDAnalysisTests.test_units.TestConversion.testEnergy(1, u'kcal/mol', u'kJ/mol', 4.184) ... ok
>MDAnalysisTests.test_units.TestConversion.testEnergy(1, u'kcal/mol', u'eV', 0.0433641) ... ok
>MDAnalysisTests.test_units.TestConversion.testForce(1, u'kJ/(mol*A)', u'J/m', 1.66053892103219e-11) ... ok
>MDAnalysisTests.test_units.TestConversion.testForce(2.5, u'kJ/(mol*nm)', u'kJ/(mol*A)', 0.25) ... ok
>MDAnalysisTests.test_units.TestConversion.testForce(1, u'kcal/(mol*Angstrom)', u'kJ/(mol*Angstrom)', 4.184) ... ok
>MDAnalysisTests.test_units.TestConversion.testLength(12.34567, u'nm', u'A', 123.4567) ... ok
>MDAnalysisTests.test_units.TestConversion.testLength(123.4567, u'Angstrom', u'nm', 12.34567) ... ok
>MDAnalysisTests.test_units.TestConversion.testTime(1, u'ps', u'AKMA', 20.45482949774598) ... ok
>MDAnalysisTests.test_units.TestConversion.testTime(1, u'AKMA', u'ps', 0.04888821) ... ok
>testConvertGromacsTrajectories (MDAnalysisTests.test_units.TestDefaultUnits) ... ok
>testLength (MDAnalysisTests.test_units.TestDefaultUnits) ... ok
>testTime (MDAnalysisTests.test_units.TestDefaultUnits) ... ok
>testUTF8Encoding (MDAnalysisTests.test_units.TestUnitEncoding) ... ok
>testUnicode (MDAnalysisTests.test_units.TestUnitEncoding) ... ok
>testUnicodeEncodingWithSymbol (MDAnalysisTests.test_units.TestUnitEncoding) ... ok
>MDAnalysisTests.test_util.TestBlocksOf.test_blocks_of_1 ... ok
>MDAnalysisTests.test_util.TestBlocksOf.test_blocks_of_2 ... ok
>MDAnalysisTests.test_util.TestBlocksOf.test_blocks_of_3 ... ok
>MDAnalysisTests.test_util.TestBlocksOf.test_blocks_of_VE ... ok
>test_val1_inject (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val1_lookup (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val2_inject (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val2_lookup (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val3_del (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val3_set (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val4_args (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>test_val5_kwargs (MDAnalysisTests.test_util.TestCachedDecorator) ... ok
>MDAnalysisTests.test_util.TestConvFloat.test_float_1 ... ok
>MDAnalysisTests.test_util.TestConvFloat.test_float_2 ... ok
>MDAnalysisTests.test_util.TestConvFloat.test_map_1 ... ok
>MDAnalysisTests.test_util.TestConvFloat.test_map_2 ... ok
>MDAnalysisTests.test_util.TestConvFloat.test_str ... ok
>testNamedStream (MDAnalysisTests.test_util.TestFilename) ... ok
>testStringExt (MDAnalysisTests.test_util.TestFilename) ... ok
>testStringKeep (MDAnalysisTests.test_util.TestFilename) ... ok
>testStringNoExt (MDAnalysisTests.test_util.TestFilename) ... ok
>testStringRootExt (MDAnalysisTests.test_util.TestFilename) ... ok
>testStringRootExtKeep (MDAnalysisTests.test_util.TestFilename) ... ok
>MDAnalysisTests.test_util.TestFixedwidthBins.test_VE ... ok
>MDAnalysisTests.test_util.TestFixedwidthBins.test_keys ... ok
>MDAnalysisTests.test_util.TestFixedwidthBins.test_usage_1 ... ok
>MDAnalysisTests.test_util.TestFixedwidthBins.test_usage_2 ... ok
>testAngleColinear (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testAngleNullVector (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testAnglePi (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testAngleRandom (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testAngleUnitvectors (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testAngleVectors (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testDihedral (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testNorm (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testNormNullVector (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testNormRandom (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testNormal (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testNormalNullVector (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>testStp (MDAnalysisTests.test_util.TestGeometryFunctions) ... ok
>Make sure ``get_writer_for`` works with compressed file file names ... ok
>Make sure ``get_writer_for`` fails if an unknown format is compressed ... ok
>Make sure ``get_writer_for`` behave as expected if *filename* ... ok
>Does ``get_writer_for`` fails with invalid format and multiframe ... ok
>test_multiframe_nonsense (MDAnalysisTests.test_util.TestGetWritterFor) ... ok
>Does ``get_writer_for`` fails as expected when provided no ... ok
>Does ``get_writer_for`` fails with non string filename, no format ... ok
>Make sure ``get_writer_for`` uses *format* if provided ... ok
>Make sure ``get_writer_for`` fails if the format is unknown ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_check_compressed_format_TE ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_format_from_filename_TE ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CHAIN', 'file.CHAIN.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CHAIN',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CHAIN', <class 'MDAnalysis.coordinates.base.ChainReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CHAIN.bz2', <class 'MDAnalysis.coordinates.base.ChainReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CHAIN.gz', <class 'MDAnalysis.coordinates.base.ChainReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CONFIG', 'file.CONFIG.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG', <class 'MDAnalysis.topology.DLPolyParser.ConfigParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG.bz2', <class 'MDAnalysis.topology.DLPolyParser.ConfigParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG.gz', <class 'MDAnalysis.topology.DLPolyParser.ConfigParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG', <class 'MDAnalysis.coordinates.DLPoly.ConfigReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG.bz2', <class 'MDAnalysis.coordinates.DLPoly.ConfigReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CONFIG.gz', <class 'MDAnalysis.coordinates.DLPoly.ConfigReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('CRD', 'file.CRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD', <class 'MDAnalysis.topology.CRDParser.CRDParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD.bz2', <class 'MDAnalysis.topology.CRDParser.CRDParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD.gz', <class 'MDAnalysis.topology.CRDParser.CRDParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD', <class 'MDAnalysis.coordinates.CRD.CRDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD.bz2', <class 'MDAnalysis.coordinates.CRD.CRDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.CRD.gz', <class 'MDAnalysis.coordinates.CRD.CRDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DMS', 'file.DMS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS', <class 'MDAnalysis.topology.DMSParser.DMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS.bz2', <class 'MDAnalysis.topology.DMSParser.DMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS.gz', <class 'MDAnalysis.topology.DMSParser.DMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS', <class 'MDAnalysis.coordinates.DMS.DMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS.bz2', <class 'MDAnalysis.coordinates.DMS.DMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DMS.gz', <class 'MDAnalysis.coordinates.DMS.DMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GMS', 'file.GMS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS', <class 'MDAnalysis.topology.GMSParser.GMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS.bz2', <class 'MDAnalysis.topology.GMSParser.GMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS.gz', <class 'MDAnalysis.topology.GMSParser.GMSParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS', <class 'MDAnalysis.coordinates.GMS.GMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS.bz2', <class 'MDAnalysis.coordinates.GMS.GMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GMS.gz', <class 'MDAnalysis.coordinates.GMS.GMSReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('GRO', 'file.GRO.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO', <class 'MDAnalysis.topology.GROParser.GROParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO.bz2', <class 'MDAnalysis.topology.GROParser.GROParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO.gz', <class 'MDAnalysis.topology.GROParser.GROParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO', <class 'MDAnalysis.coordinates.GRO.GROReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO.bz2', <class 'MDAnalysis.coordinates.GRO.GROReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.GRO.gz', <class 'MDAnalysis.coordinates.GRO.GROReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('HISTORY', 'file.HISTORY.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY', <class 'MDAnalysis.topology.DLPolyParser.HistoryParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY.bz2', <class 'MDAnalysis.topology.DLPolyParser.HistoryParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY.gz', <class 'MDAnalysis.topology.DLPolyParser.HistoryParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY', <class 'MDAnalysis.coordinates.DLPoly.HistoryReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY.bz2', <class 'MDAnalysis.coordinates.DLPoly.HistoryReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.HISTORY.gz', <class 'MDAnalysis.coordinates.DLPoly.HistoryReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('INPCRD', 'file.INPCRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.INPCRD',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.INPCRD', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.INPCRD.bz2', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.INPCRD.gz', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MDCRD', 'file.MDCRD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MDCRD',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MDCRD', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MDCRD.bz2', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MDCRD.gz', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('MOL2', 'file.MOL2.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2', <class 'MDAnalysis.topology.MOL2Parser.MOL2Parser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2.bz2', <class 'MDAnalysis.topology.MOL2Parser.MOL2Parser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2.gz', <class 'MDAnalysis.topology.MOL2Parser.MOL2Parser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2', <class 'MDAnalysis.coordinates.MOL2.MOL2Reader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2.bz2', <class 'MDAnalysis.coordinates.MOL2.MOL2Reader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.MOL2.gz', <class 'MDAnalysis.coordinates.MOL2.MOL2Reader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NC', 'file.NC.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NC',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NC', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NC.bz2', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NC.gz', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('NCDF', 'file.NCDF.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NCDF',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NCDF', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NCDF.bz2', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.NCDF.gz', <class 'MDAnalysis.coordinates.TRJ.NCDFReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDB', 'file.PDB.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB', <class 'MDAnalysis.topology.PDBParser.PDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB.bz2', <class 'MDAnalysis.topology.PDBParser.PDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB.gz', <class 'MDAnalysis.topology.PDBParser.PDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB', <class 'MDAnalysis.coordinates.PDB.PDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB.bz2', <class 'MDAnalysis.coordinates.PDB.PDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDB.gz', <class 'MDAnalysis.coordinates.PDB.PDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PDBQT', 'file.PDBQT.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT', <class 'MDAnalysis.topology.PDBQTParser.PDBQTParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT.bz2', <class 'MDAnalysis.topology.PDBQTParser.PDBQTParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT.gz', <class 'MDAnalysis.topology.PDBQTParser.PDBQTParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT', <class 'MDAnalysis.coordinates.PDBQT.PDBQTReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT.bz2', <class 'MDAnalysis.coordinates.PDBQT.PDBQTReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PDBQT.gz', <class 'MDAnalysis.coordinates.PDBQT.PDBQTReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PRMTOP', 'file.PRMTOP.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PRMTOP', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PRMTOP.bz2', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PRMTOP.gz', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PRMTOP',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PQR', 'file.PQR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR', <class 'MDAnalysis.topology.PQRParser.PQRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR.bz2', <class 'MDAnalysis.topology.PQRParser.PQRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR.gz', <class 'MDAnalysis.topology.PQRParser.PQRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR', <class 'MDAnalysis.coordinates.PQR.PQRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR.bz2', <class 'MDAnalysis.coordinates.PQR.PQRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PQR.gz', <class 'MDAnalysis.coordinates.PQR.PQRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('PSF', 'file.PSF.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PSF', <class 'MDAnalysis.topology.PSFParser.PSFParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PSF.bz2', <class 'MDAnalysis.topology.PSFParser.PSFParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PSF.gz', <class 'MDAnalysis.topology.PSFParser.PSFParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.PSF',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('RESTRT', 'file.RESTRT.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.RESTRT',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.RESTRT', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.RESTRT.bz2', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.RESTRT.gz', <class 'MDAnalysis.coordinates.INPCRD.INPReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TOP', 'file.TOP.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TOP', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TOP.bz2', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TOP.gz', <class 'MDAnalysis.topology.TOPParser.TOPParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TOP',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TPR', 'file.TPR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TPR', <class 'MDAnalysis.topology.TPRParser.TPRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TPR.bz2', <class 'MDAnalysis.topology.TPRParser.TPRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TPR.gz', <class 'MDAnalysis.topology.TPRParser.TPRParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TPR',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRJ', 'file.TRJ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRJ',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRJ', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRJ.bz2', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRJ.gz', <class 'MDAnalysis.coordinates.TRJ.TRJReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRR', 'file.TRR.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRR',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRR', <class 'MDAnalysis.coordinates.TRR.TRRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRR.bz2', <class 'MDAnalysis.coordinates.TRR.TRRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRR.gz', <class 'MDAnalysis.coordinates.TRR.TRRReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XML', 'file.XML.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XML', <class 'MDAnalysis.topology.HoomdXMLParser.HoomdXMLParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XML.bz2', <class 'MDAnalysis.topology.HoomdXMLParser.HoomdXMLParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XML.gz', <class 'MDAnalysis.topology.HoomdXMLParser.HoomdXMLParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XML',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XPDB', 'file.XPDB.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB', <class 'MDAnalysis.topology.ExtendedPDBParser.ExtendedPDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB.bz2', <class 'MDAnalysis.topology.ExtendedPDBParser.ExtendedPDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB.gz', <class 'MDAnalysis.topology.ExtendedPDBParser.ExtendedPDBParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB', <class 'MDAnalysis.coordinates.PDB.ExtendedPDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB.bz2', <class 'MDAnalysis.coordinates.PDB.ExtendedPDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XPDB.gz', <class 'MDAnalysis.coordinates.PDB.ExtendedPDBReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XTC', 'file.XTC.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XTC',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XTC', <class 'MDAnalysis.coordinates.XTC.XTCReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XTC.bz2', <class 'MDAnalysis.coordinates.XTC.XTCReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XTC.gz', <class 'MDAnalysis.coordinates.XTC.XTCReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('XYZ', 'file.XYZ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ', <class 'MDAnalysis.topology.XYZParser.XYZParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ.bz2', <class 'MDAnalysis.topology.XYZParser.XYZParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ.gz', <class 'MDAnalysis.topology.XYZParser.XYZParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ', <class 'MDAnalysis.coordinates.XYZ.XYZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ.bz2', <class 'MDAnalysis.coordinates.XYZ.XYZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.XYZ.gz', <class 'MDAnalysis.coordinates.XYZ.XYZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DATA', 'file.DATA.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA', <class 'MDAnalysis.topology.LAMMPSParser.DATAParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA.bz2', <class 'MDAnalysis.topology.LAMMPSParser.DATAParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA.gz', <class 'MDAnalysis.topology.LAMMPSParser.DATAParser'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA', <class 'MDAnalysis.coordinates.LAMMPS.DATAReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA.bz2', <class 'MDAnalysis.coordinates.LAMMPS.DATAReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DATA.gz', <class 'MDAnalysis.coordinates.LAMMPS.DATAReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('DCD', 'file.DCD.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DCD',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DCD', <class 'MDAnalysis.coordinates.DCD.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DCD.bz2', <class 'MDAnalysis.coordinates.DCD.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.DCD.gz', <class 'MDAnalysis.coordinates.DCD.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('LAMMPS', 'file.LAMMPS.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.LAMMPS',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.LAMMPS', <class 'MDAnalysis.coordinates.LAMMPS.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.LAMMPS.bz2', <class 'MDAnalysis.coordinates.LAMMPS.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.LAMMPS.gz', <class 'MDAnalysis.coordinates.LAMMPS.DCDReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ.bz2') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('TRZ', 'file.TRZ.gz') ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRZ',) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRZ', <class 'MDAnalysis.coordinates.TRZ.TRZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRZ.bz2', <class 'MDAnalysis.coordinates.TRZ.TRZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_formats('file.TRZ.gz', <class 'MDAnalysis.coordinates.TRZ.TRZReader'>) ... ok
>MDAnalysisTests.test_util.TestGuessFormat.test_guess_format_stream_VE ... ok
>test_arrays (MDAnalysisTests.test_util.TestIterable) ... ok
>test_iterator (MDAnalysisTests.test_util.TestIterable) ... ok
>test_lists (MDAnalysisTests.test_util.TestIterable) ... ok
>test_scalars (MDAnalysisTests.test_util.TestIterable) ... ok
>Test that iterable() works on any string (Fixed bug) ... ok
>test_tuples (MDAnalysisTests.test_util.TestIterable) ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_double_frag_short_bonds ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_impossible_solve ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_no_bonds ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_not_orthogonal ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_solve_1 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_solve_2 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_solve_3 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_solve_4 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_too_small_box_size ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_walk_1 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_walk_2 ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_wrong_reference_atom ... ok
>MDAnalysisTests.test_util.TestMakeWhole.test_zero_box_size ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_VE_1 ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_VE_2 ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HIS', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HISA', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HISB', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HSE', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HSD', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HIS1', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HIS2', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HIE', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('HID', 'H') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('LYS', 'K') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('LYSH', 'K') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('LYN', 'K') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('ALA', 'A') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('ASP', 'D') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('ASPH', 'D') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('ASH', 'D') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('GLU', 'E') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('GLUH', 'E') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('GLH', 'E') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('ASN', 'N') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('GLN', 'Q') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('CYS', 'C') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('CYSH', 'C') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('CYS1', 'C') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_long('CYS2', 'C') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('H', 'HIS') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('K', 'LYS') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('A', 'ALA') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('D', 'ASP') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('E', 'GLU') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('N', 'ASN') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('Q', 'GLN') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_convert_aa_code_short('C', 'CYS') ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue('LYS300:HZ1', ('LYS', 300, 'HZ1')) ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue('K300:HZ1', ('LYS', 300, 'HZ1')) ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue('K300', ('LYS', 300, None)) ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue('LYS 300:HZ1', ('LYS', 300, 'HZ1')) ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue('M1:CA', ('MET', 1, 'CA')) ... ok
>MDAnalysisTests.test_util.TestStringFunctions.test_parse_residue_VE ... ok
>MDAnalysisTests.test_util.test_greedy_splitext ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR505) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR505) ... ok
>testParse_velocities (MDAnalysisTests.test_velocities_forces.TestGROVelocities) ... ok
>testForces (MDAnalysisTests.test_velocities_forces.TestTRRForces) ... ok
>test_atom_number (MDAnalysisTests.test_tprparser.TestTPR510) ... ok
>Check that get_parser returns the intended parser ... ok
>Check that the parser works as intended, ... ok
>test_parser_atoms (MDAnalysisTests.test_tprparser.TestTPR510) ... ok
>test_atom_force_get (MDAnalysisTests.test_velocities_forces.TestAtom_ForceVelocity) ... ok
>test_atom_force_set (MDAnalysisTests.test_velocities_forces.TestAtom_ForceVelocity) ... ok
>test_atom_velocity_get (MDAnalysisTests.test_velocities_forces.TestAtom_ForceVelocity) ... ok
>test_atom_velocity_set (MDAnalysisTests.test_velocities_forces.TestAtom_ForceVelocity) ... ok
>testForces (MDAnalysisTests.test_velocities_forces.TestTRRForcesNativeUnits) ... ok
>this function tries to spit back out the tuple of tuples that made it ... ok
>Make two identical TGs, ... ok
>Round trip check of dumping indices then recreating ... ok
>test_TG_getitem_bool (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_TG_getitem_bool_IE (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_TG_getitem_fancy (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_TG_getitem_single (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_TG_getitem_slice (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>Create a TG from indices ... ok
>Pull bonds from a TG which are at least partially in an AG ... ok
>Pull bonds from TG which are fully in an AG ... ok
>test_TG_without_bondclass (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_add_TopologyGroups (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_add_singleitem (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_add_wrongtype_TopologyGroup (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_angles_contains (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_angles_reversal (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>TopologyDict for angles ... ok
>test_angles_uniqueness (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_bad_add_TopologyGroup (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>Test making a TopologyDict out of nonsense ... ok
>Test making a TopologyGroup out of nonsense ... ok
>test_bond_reversal (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_bond_uniqueness (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_bonds_contains (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>Tests TopologyDict for bonds ... ok
>test_create_TopologyGroup (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_create_empty_TG (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_dihedrals_contains (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_dihedrals_reversal (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>TopologyDict for dihedrals ... ok
>test_dihedrals_uniqueness (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_force_bondclass (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_from_indices_VE (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_from_indices_nonglobal_idx (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_td_iter (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_td_keyerror (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_td_len (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>test_verticalTG (MDAnalysisTests.test_topology.TestTopologyGroup) ... ok
>======================================================================
>ERROR: MDAnalysisTests.coordinates.test_timestep_api.TestTRZ.test_dt
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_timestep_api.py", line 201, in setUp
>    u = self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.coordinates.test_timestep_api.TestTRZ.test_frame
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_timestep_api.py", line 201, in setUp
>    u = self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: Failure: IOError ()
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/loader.py", line 284, in generate
>    for test in g():
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/base.py", line 741, in test_copy
>    u = mda.Universe(*self.uni_args)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_write_trajectory (MDAnalysisTests.coordinates.test_trz.TestWrite_Partial_Timestep)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 219, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_long_title (MDAnalysisTests.coordinates.test_trz.TestTRZWriter)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 127, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_write_trajectory (MDAnalysisTests.coordinates.test_trz.TestTRZWriter)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 127, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_coordinates (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_delta (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_get_writer (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_get_writer_2 (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_load_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_n_frames (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_next_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_rewind_trz (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_seeking (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_time (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_title (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_unitcell (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_velocities (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_volume (MDAnalysisTests.coordinates.test_trz.TestTRZReader)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/coordinates/test_trz.py", line 21, in setUp
>    self.universe = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_partial_timestep (MDAnalysisTests.test_atomgroup.TestAtomGroupTimestep)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1485, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_custom_both (MDAnalysisTests.test_atomgroup.TestCustomReaders)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2028, in test_custom_both
>    topology_format=MDAnalysis.topology.PSFParser.PSFParser)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_custom_parser (MDAnalysisTests.test_atomgroup.TestCustomReaders)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2020, in test_custom_parser
>    u = MDAnalysis.Universe(TRZ_psf, TRZ, topology_format=MDAnalysis.topology.PSFParser.PSFParser)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_custom_reader (MDAnalysisTests.test_atomgroup.TestCustomReaders)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1998, in test_custom_reader
>    u = MDAnalysis.Universe(TRZ_psf, TRZ, format=MDAnalysis.coordinates.TRZ.TRZReader)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_default (MDAnalysisTests.test_atomgroup.TestPBCFlag)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1733, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1733, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_override_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1733, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_pbcflag (MDAnalysisTests.test_atomgroup.TestPBCFlag)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1733, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_usepbc_flag (MDAnalysisTests.test_atomgroup.TestPBCFlag)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 1733, in setUp
>    self.universe = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_atoms (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_box_fail (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_cent_fail (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_comp_fail (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_fragments (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_group (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_residues (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: test_wrap_segments (MDAnalysisTests.test_atomgroup.TestWrap)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomgroup.py", line 2036, in setUp
>    self.u = MDAnalysis.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('kdtree', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('distmat', True)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_around('distmat', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_cyzone('distmat', True)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_cyzone('distmat', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('kdtree', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('distmat', True)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_point('distmat', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('kdtree', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('distmat', True)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_zone('distmat', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('kdtree', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('distmat', True)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>======================================================================
>ERROR: MDAnalysisTests.test_atomselections.TestOrthogonalDistanceSelections.test_spherical_layer('distmat', False)
>----------------------------------------------------------------------
>Traceback (most recent call last):
>  File "/usr/lib/python2.7/site-packages/nose/case.py", line 381, in setUp
>    try_run(self.inst, ('setup', 'setUp'))
>  File "/usr/lib/python2.7/site-packages/nose/util.py", line 471, in try_run
>    return func()
>  File "/usr/lib64/python2.7/site-packages/numpy/testing/decorators.py", line 147, in skipper_func
>    return f(*args, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/test_atomselections.py", line 604, in setUp
>    self.u = mda.Universe(TRZ_psf, TRZ)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4044, in __init__
>    self.load_new(coordinatefile, **kwargs)
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/core/AtomGroup.py", line 4576, in load_new
>    self.trajectory = reader(filename, **kwargs)    # unified trajectory API
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 164, in __init__
>    self._read_trz_header()
>  File "/builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib64/python2.7/site-packages/MDAnalysis/coordinates/TRZ.py", line 231, in _read_trz_header
>    raise IOError
>IOError: 
>-------------------- >> begin captured logging << --------------------
>MDAnalysis.topology.PSF: DEBUG: PSF file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trz_psf.psf: format STANDARD
>MDAnalysis.topology.PSF: WARNING: Guessing that this is actually a NAMD-type PSF file... continuing with fingers crossed!
>MDAnalysis.topology.PSF: DEBUG: First NAMD-type line: 0:     1 PA         1 PA M3P  7 0.00  0.43E-01 0
>MDAnalysis.core.AtomGroup: DEBUG: Universe.load_new(): loading /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/trzfile.trz...
>--------------------- >> end captured logging << ---------------------
>Cleanup: deleting offset files in /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/.adk_oplsaa.trr_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/.cobrotoxin.xtc_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/.adk_oplsaa.xtc_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/.gram_A_identical_frames.xtc_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/.cobrotoxin.trr_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates/.test.xtc_offsets.npz
>Cleanup: deleting offset file /builddir/build/BUILDROOT/python-MDAnalysis-0.14.0-5.fc26.ppc64/usr/lib/python2.7/site-packages/MDAnalysisTests/data/coordinates/.test.trr_offsets.npz
>----------------------------------------------------------------------
>Ran 3339 tests in 156.608s
>FAILED (KNOWNFAIL=3, SKIP=5, errors=51)
>error: Bad exit status from /var/tmp/rpm-tmp.a3xG9c (%check)
>    Bad exit status from /var/tmp/rpm-tmp.a3xG9c (%check)
>RPM build errors:
>Child return code was: 1
>EXCEPTION: [Error()]
>Traceback (most recent call last):
>  File "/usr/lib/python3.5/site-packages/mockbuild/trace_decorator.py", line 89, in trace
>    result = func(*args, **kw)
>  File "/usr/lib/python3.5/site-packages/mockbuild/util.py", line 578, in do
>    raise exception.Error("Command failed. See logs for output.\n # %s" % (command,), child.returncode)
>mockbuild.exception.Error: Command failed. See logs for output.
> # bash --login -c /usr/bin/rpmbuild -bb --target ppc64 --nodeps /builddir/build/SPECS/python-MDAnalysis.spec

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Attachments on bug 1424167: 1253790 | 1253791 | 1253792