[Chimera-users] exported as PDB, but structure is not the same upon reopening

Eric Pettersen pett at cgl.ucsf.edu
Mon Mar 3 15:06:59 PST 2014


Hi Alex,
	AFAIK this should work.  Could you save a session just before you would write the PDB file and then use Help->Report a Bug and attach the session so I can investigate?  Thanks!

--Eric

                        Eric Pettersen
                        UCSF Computer Graphics Lab
                        http://www.cgl.ucsf.edu

On Feb 28, 2014, at 12:26 PM, "Stern, Alexander Thomas" wrote:

> Hello,
> 
> I am attempting to attach a covalent (cysteine modifying) ligand to my protein, and I will later be optimizing/minimizing in another program.
> 
> I opened my structure in Chimera, loaded the ligands, moved them roughly into place, and merged the models. I then added the bonds and exported the file as a pdb. Upon reopening that very same pdb in Chimera, the bonds I made are gone (however, the ligands are in the position I placed them in). Curious to understand what I am doing incorrectly here.
> 
> Alex







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