Hi, I may have found a bug in the way pymol interprets connectivity of atoms. I noticed this in one pdb structure that I am working with 1RV1.
Steps to reproduce: fetch 1RV1 #extract one of the ligands to it's own object extract 'lig', /1RV1//A/110 #add hydrogens h_add lig Now look at atom C2 on the ligand and notice that pymol added a hydrogen almost along an existing bond to another ring. I am running pymol 1.5.0.1 on Ubuntu 13.04. I'm not sure if this has been reported before and has been fixed already in 1.6. I haven't gotten around to upgrading yet, but I am willing to. Thanks, Matt -- ------------------------------------------------------------------------------ How ServiceNow helps IT people transform IT departments: 1. A cloud service to automate IT design, transition and operations 2. Dashboards that offer high-level views of enterprise services 3. A single system of record for all IT processes http://p.sf.net/sfu/servicenow-d2d-j _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
