Cloned from upstream: https://pagure.io/freeipa/issue/6925

Attempting to install KRA on a server that has CA, but was originally installed as CA-less fails. It seems there is an issue with the certificate (see dirsrv access log).

### Steps to reproduce

1. Install CA less server
2. ipa-ca-install
3. ipa-kra-install

### Output

```
Configuring KRA server (pki-tomcatd). Estimated time: 2 minutes
  [1/9]: configuring KRA instance
Failed to configure KRA instance: Command '/usr/sbin/pkispawn -s KRA -f /tmp/tmp3CYZRR' returned non-zero exit status 1
See the installation logs and the following files/directories for more information:
  /var/log/pki/pki-tomcat
  [error] RuntimeError: KRA configuration failed.
```

### Logs

- /var/log/ipaserver-kra-install.log

```
2017-05-03T12:50:41Z DEBUG stdout=Log file: /var/log/pki/pki-kra-spawn.20170503145041.log
Loading deployment configuration from /tmp/tmp3CYZRR.
ERROR:  Unable to access directory server: Can't contact LDAP server

2017-05-03T12:50:41Z DEBUG stderr=
2017-05-03T12:50:41Z CRITICAL Failed to configure KRA instance: Command '/usr/sbin/pkispawn -s KRA -f /tmp/tmp3CYZRR' returned non-zero exit status 1
2017-05-03T12:50:41Z CRITICAL See the installation logs and the following files/directories for more information:
2017-05-03T12:50:41Z CRITICAL   /var/log/pki/pki-tomcat
2017-05-03T12:50:41Z DEBUG Traceback (most recent call last):
  File "/usr/lib/python2.7/site-packages/ipaserver/install/service.py", line 504, in start_creation
    run_step(full_msg, method)
  File "/usr/lib/python2.7/site-packages/ipaserver/install/service.py", line 494, in run_step
    method()
  File "/usr/lib/python2.7/site-packages/ipaserver/install/krainstance.py", line 289, in __spawn_instance
    tmp_agent_pwd)
  File "/usr/lib/python2.7/site-packages/ipaserver/install/dogtaginstance.py", line 148, in spawn_instance
    self.handle_setup_error(e)
  File "/usr/lib/python2.7/site-packages/ipaserver/install/dogtaginstance.py", line 395, in handle_setup_error
    raise RuntimeError("%s configuration failed." % self.subsystem)
RuntimeError: KRA configuration failed.
```

- /var/log/dirsrv/slapd-EXAMPLE-COM/access

```
[03/May/2017:14:50:41.472662295 +0200] conn=26 fd=104 slot=104 SSL connection from dead::beef to dead::beef
[03/May/2017:14:50:41.486067611 +0200] conn=26 op=-1 fd=104 closed - Peer does not recognize and trust the CA that issued your certificate.
[03/May/2017:14:50:41.635267232 +0200] conn=24 op=1 UNBIND
[03/May/2017:14:50:41.635309926 +0200] conn=24 op=1 fd=103 closed - U1
```