>From a purely structural perspective you can look at the interface
residues script on the PyMOLWiki:
http://pymolwiki.org/index.php/InterfaceResidues
The interface could be detected by
run /path/to/interfaceResidues.py
fetch 1bm2
interfaceResidues 1bm2, c. A, c. L
But, you may have more biologically meaningful results with a server
made especially for this task.
Hope this helps,
-- Jason
--
Jason Vertrees, PhD
PyMOLWiki -- http://www.pymolwiki.org
On Wed, Dec 9, 2009 at 5:57 PM, Kousik Kundu
<kou...@informatik.uni-freiburg.de> wrote:
>
> Dear Sir,
> I, Kousik Kundu, am a Ph.D student at university of Freiburg,
> Germany. I am using Pymol for my recent work. I need to to the
> amino acids involve in an interaction. For example 1BM2 (PDB id)
> is a complex of a SH2 domain and a small peptide. Here i want to
> know which amino acids (in both SH2 domain and peptide) are
> involved in the interaction.
>
> e.g. position 97 (SH2) interacting with position 11,14 (peptides)
>
> I need it little urgently. If you help me, I would be really grateful to you.
>
> Thank you in advanced ..
>
> Best Regards,
>
> Kousik Kundu
> **********************************
>
> Kousik Kundu
> Bioinformatics Group
> Institute of Computer Science
> Albert-Ludwigs-University Freiburg
> Georges-Köhler-Allee 106
> 79110 Freiburg
> Germany
> Tel: +49 761 203 7465
> Fax: +49 761 203 7464
>
>
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