[Chimera-users] pdb format

Elaine Meng meng at cgl.ucsf.edu
Mon Feb 27 09:14:50 PST 2006

Hi Batsal,
I am not sure I understand the question.  You can save PDB files or 
Mol2 files as described in

These are the only formats currently available for writing out 
molecular coordinates.  Currently there is no way to save MD 
trajectories in any of the other MD formats, only as PDB (after playing 
all of the frames you want to save,  choose File... Save PDB or one of 
the other methods described in the man page above and use the setting 
to Save "all frames").

I am not sure what you mean by "Chimera format" - there isn't really a 
Chimera format for molecular structure, unless you mean a session file, 
or perhaps a PDB file written by Chimera. Why not use the original MD 
format in the MD program?  I am not sure why you want to put the data 
through Chimera before going back to the MD program.

I hope this helps,
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Feb 24, 2006, at 10:03 AM, Batsal Devkota wrote:

> Hi,
> Is it possible to save the pdb file in the same format as we loaded
> into Chimera? This is because the MD program that I am using does not
> recognize Chimera format.
> Any help will be appreciated.
> Batsal Devkota.
> Graduate Student
> Georgia Tech
> Atlanta, GA 30339
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> Chimera-users at cgl.ucsf.edu
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