[Chimera-users] cavities

[Elaine Meng]

Hi Pablo,
You could try Surfnet (under Tools... Surface/Binding Analysis).
http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/surfnet/ 
surfnet.html

Outside of Chimera, I personally like the CASTp method; this page links  
to a server and a publications list:
http://sts.bioengr.uic.edu/castp/

Unfortunately, visualization of the CASTp results is more convenient  
with Pymol (because there is a plugin), but the information can also be  
used for further visualization in Chimera.
I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html


On Jun 14, 2007, at 11:45 AM, Pablo Emiliano Tomatis wrote:

> hello
> It is possible to find cavities of a protein using chimera?
> Any hepl???
> thanks in advance
>
>
> -- 
> Lic. Pablo E. Tomatis
> Instituto de Biología Molecular y Celular de Rosario (IBR)
> Área Biofísica - Departamento de Química Biológica
> Fac. Cs. Bioq. y Farm. - U.N.Rosario
> Suipacha 531 - S2002LRK- Rosario- Argentina
> Phone:+54-341-4350661/4350596 (ext.110) Fax:+54-341-4390465
>
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