Dear Vivek,
In general, you could use the FindHBond and Find Clashes/Contacts tools (or their command equivalents).
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/findhbond/findhbond.html>
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/findclash/findclash.html>
For example, see this tutorial:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/squalene.html>
There are several additional tutorials that may be useful for learning how to use Chimera:
<http://www.cgl.ucsf.edu/Outreach/Tutorials/GettingStarted.html>
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/frametut.html>
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 Jan 30, 2012, at 2:01 AM, Vivek Keshri wrote:
> Dear Sir / Madam,
>
> I Vivek Keshri writing from Uttar Pradesh India, I am opening docked PDB file in Chimera 1.5.3 and want to identify all residue of receptor and ligand which are involved in binding.
>
> Waiting for favorable response...
>
> Yours Sincerely,
>
> Vivek Keshri