Hi Tom, On Tue, May 27, 2008 at 10:53 PM, Thomas S. Leyh, Ph. D. <l...@aecom.yu.edu> wrote: > From time to time I find it valuable to view the suface of a > ligand-binding pocket looking out from the surface's interior. This is > accomplished in a variety of ways - principally, zooming and clipping. It > would be wonderful to be able to represent just the "skin" of the active > site wrapping around the ligands, like a sac - this seems quite difficult to > achieve.
Do you mean like what you would get from: create protein, not ligands hide everything show sticks, ligands show surface, protein within 5 of ligands (using appropriate selections)? Otherwise, could you give an example of what you mean (and what you don't mean), e.g. a link to an image? > A related problem is that ray-ing a surface that has been clipped > yields a collection of odd surface regions that represent poorly the > non-ray-ed version - it is as if the resolution of the ray it too gross to > capture the clipping edges. > I'm not quite certain what I have to imagine here. Linking an image from before raytracing and one after would be helpful. > Advice appreciated. > > Thanks, > > Tom Leyh Cheers, Tsjerk -- Tsjerk A. Wassenaar, Ph.D. Junior UD (post-doc) Biomolecular NMR, Bijvoet Center Utrecht University Padualaan 8 3584 CH Utrecht The Netherlands P: +31-30-2539931 F: +31-30-2537623
