[Chimera-users] failing to open saved PDBs

Elaine Meng meng at cgl.ucsf.edu
Mon Nov 28 09:30:36 PST 2016


Hi Joe,
A multi-model PDB should open fine; this format is used for NMR ensembles from the PDB, e.g. fetch 1g1p and see what you get.  Not sure what you meant by “behave like a single structure,” but you can see how it is supposed to behave by opening that example or any other NMR ensemble from the PDB.

I can only say to look at the options carefully when saving (could be something like “save selected atoms only” was turned on but nothing was selected).  Also, after trying to open the file, you could use menu: "Presets…. Interactive 2 (all atoms)" in case the atoms were automatically hidden for some unknown reason.  

However, it’s basically impossible for us to tell what’s going on without seeing your file, either sent to this list or attached to a bugreport set with menu: Help… Report a Bug.
Best,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Nov 28, 2016, at 5:02 AM, Healey, Joe <J.R.J.Healey at warwick.ac.uk> wrote:
> 
> Hi (again) Chimera Team!
> Encountered a problem where chimera seems to fail to open PDBs that it created.
> I saved multiple PDBs to a single file as I wanted to open them and have them behave like a single structure.
> I started a new session with another PDB open that I want to compare the multiple PDBs to, went to open the multiple PDBs from before that I saved as a single file and nothing appears. Chimera claims to have opened the files successfully and I get no errors etc.
> Am I maybe misunderstanding the point/use of the multiPDB file form?
> Joe Healey




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