/usr/lib64/libpyldb-util.cpython-36m-x86-64-linux-gnu.so.1.3.1 in python3-ldb-1.3.1-4.fc28.x86_64 lacks annobin annotations. My working hypothesis is that this happens due to the use of LTO. It does not happen for the Python 2 module, or on other architectures. Is there any particular reason why you use LTO?
libldb-1.3.2-1.fc28 was built without LTO, so the issue is gone.
(In reply to Florian Weimer from comment #1) > libldb-1.3.2-1.fc28 was built without LTO, so the issue is gone. This is because of workaround in spec file https://src.fedoraproject.org/rpms/libldb/c/2fb01387e4c55d57c48ccdd13853992017d70386?branch=f28 Which I forgot to apply in f29(will do soon)