No. When I read in the pdb, containing the ligand and the protein
and simply calculate the surface, I get a surface for the protein,
but not the ligand.
Simon
On Nov 2, 2006, at 3:53 PM, Nicholas Noinaj wrote:
can you get a surface for the protein-ligand complex?
cheers,
nick
-----Original Message-----
From: Simon Holton <simon.hol...@embl-hamburg.de>
To: "Andrew Colasanti" <acolasa...@gmail.com>
Date: Thu, 2 Nov 2006 15:36:55 +0100
Subject: Re: [PyMOL] Ligand Surface Representation
Maybe it wasn't clear from my original email, but I did try making a
new object for the ligand and one for the 'empty' protein, but this
doesn't help :-(
Simon
On Nov 2, 2006, at 3:19 PM, Andrew Colasanti wrote:
Did you create a new object for the ligand? Try creating 2 objects,
one for ligand and one for protein w/o ligand.
Andrew
On 11/2/06, Simon Holton <simon.hol...@embl-hamburg.de> wrote:
Hi Folks,
I'm trying to generate a surface for a ligand which is
part of a
ligand-protein complex. I realise this is the other way around to
normal, but somehow when I select the ligand in pymol and then 'show
surface, ligand', absolutely nothing happens. No error, but no
surface. The same happens if I just open a pdb file describing the
ligand alone. Other representations work, but the problem is not
PDB
specific. I'm using the macpymol X11 hybrid (0.98)
Any suggestions?
Cheers
SImon
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________________________________________
Nicholas Noinaj
University of Kentucky College of Medicine
Department of Molecular and Cellular Biochemistry
The Center for Structural Biology
Biomedical Biological Sciences Research Building, Rm 236
741 S. Limestone
Lexington, Ky 40536
Lab: 859-323-8183
Cell: 859-893-4789
Home: 859-228-0978
noi...@uky.edu
noinaj.com
