* Nat Echols <n...@bioinfo.mbb.yale.edu> [2003-05-13 15:38] wrote: > > I'm new with Pymol and I would like your help in the following problem: > > I have a receptor image that I want to emphasize the ligand in its interior. > > I'm a big fan of transparent surfaces for this, e.g.: > http://bioinfo.mbb.yale.edu/people/nat/mbp.mpg > > > Its a nonpeptidic ligand that I would like to increase the radius of the > > sticks model. > > set stick_radius = 0.3 > or something like that - I think the default is 0.25 or something like > that.
And if you want to draw sticks for both the protein and ligand at different radii, you can do: set stick_radius, 0.2, protein set stick_radius, 0.5, ligand assuming that "protein" and "ligand" are different objects. If they come from one PDB file, then you can read the PDB file in and then create a separate object for the ligand with something like: create ligand, (selection) in which you replace "selection" with something that will select only your ligand. Hope this helps, Robert -- Robert L. Campbell, Ph.D. <r...@post.queensu.ca> Senior Research Associate phone: 613-533-6821 Dept. of Biochemistry, Queen's University, fax: 613-633-2497 Kingston, ON K7L 3N6 Canada http://adelie.biochem.queensu.ca/~rlc PGP Fingerprint: 9B49 3D3F A489 05DC B35C 8E33 F238 A8F5 F635 C0E2
