[Chimera-users] how to find

[Elaine Meng]

On Feb 18, 2012, at 8:45 AM, Bishwajit Das wrote:

> Thanks for this information but when i try to find the distance between GLU101 and ARG 165, with this command distance : 101 at ca :165 at ca,
> then its select GLY101 and SER 165 and showing the distance.How can i select specific atom.please help me.

Please see the documentation on how to specify atoms in the command line. It includes several examples.
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html>

Of course it depends what is in your input file.  If there are two residues with the same number, it is a problem with your input file, unless they are in different chains.  You can also include chain in the description, for example ":165.a at ca" for CA atom in residue 165 of chain A. 

You can also choose the two atoms from the screen with Ctrl-click, Shift-Ctrl-click and then use command "distance sel"

Elaine
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Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco