[Chimera-users] Obtain list of residues in CASTp pocket

Elaine Meng meng at cgl.ucsf.edu
Thu Feb 25 09:48:37 PST 2016


Hi Felipe,
When atoms are selected (by any method, but including when you have “Select” turned on in the CASTp dialog), you can write out a list of those atoms or their residues.  Just choose Actions… Write List from the main menu in Chimera, then specify that you want to write “selected” (instead of “unselected”) and “residues” (instead of individual “atoms”).  You can write this list to a text file, or just click the “Log” button on the writing dialog to instead send the information to the Reply Log.  You can show the Reply Log from the Favorites menu of Chimera.

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/menu.html#writespec>

I hope this helps,
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 Feb 24, 2016, at 6:35 PM, Felipe Vasquez <anfelvas at gmail.com> wrote:
> 
> Hi, 
> I recently could detect those residues composing certain pocket of my protein, which appeared colored in green at the complete 'sequence' window. However, I wonder if it is possible to obtain these residues as a list (thr59, Val115, etc) useful as a txt or other similar format. Is there some way to achieve this goal? It could be possible for Surfnet also?
> Thanks in advance for your help.
> Best regards,




More information about the Chimera-users mailing list