[Chimera-users] Command line selection in Chimera

Elaine Meng meng at cgl.ucsf.edu
Tue Jan 16 11:49:23 PST 2018


Hi Jerry,
Chimera does not support 2-character chain IDs, likely the root problem.  On the laptop I’m using today, I can’t even open something as large as 5doy in Chimera (although it’s fine in ChimeraX), but I recall recently testing this with a different structure that had chains A1, A2, … and I was unable to specify them uniquely in Chimera.  I could specify chain A in Chimera, but it only mapped to one of those 2-letter chains starting with A.
I hope this clarifies the situation,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Jan 12, 2018, at 11:42 AM, Jerry Honts <jerryeuhonts at gmail.com> wrote:
> 
> Is there any easy way to select a range of chains in complex models like the ribosome in Chimera at the command line?  I haven't been able to work out the syntax for this type of complex selection at the command line.  For example, what is the syntax of the command to select chains 1G through 1Z and chains 10 through 19 in PDB file 5DOY [without explicitly listing them one by one]?  I may be missing something simple, and I have not been able to get it to work or find an example in documentation.
> 
> I have been able to do this in Chimera X but not the current version of Chimera.
> 
> Thanks,
> 
> Jerry E. Honts
> -- 
> Jerry E. Honts, Ph. D.
> Associate Professor of Biology
> Drake University
> 2507 University Avenue
> Des Moines, IA 50311-4505
> Science Connector Building 210 (faculty office)




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