[Chimera-users] select atoms near at least one other atom in original selection?

Elaine Meng meng at cgl.ucsf.edu
Tue Nov 1 11:04:31 PDT 2016


Hi Oli,
To select all residues with any atom within 10 angstroms of current selection:

sel sel zr<10

I wasn’t totally sure if that was what you wanted. If you just want atoms and not whole residues, it would be za instead of zr.
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 1, 2016, at 10:47 AM, Oliver Clarke <olibclarke at gmail.com> wrote:
> 
> Hi,
> 
> I’d basically like to perform the equivalent of “hide dust” on an atom selection. I have a bunch of mutation positions that I’ve mapped onto a structure, and I would like to create a subselection containing only those positions which are within lets say 10Å of at least one other postion in the original selection - basically to represent  structural clusters of mutations on the structure. Does anyone have any suggestion how to create such a selection using Chimera’s atom selection language? It seems like zr should do it but I can’t quite figure out how.
> 
> Cheers
> Oli.




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