> Has anyone been succesful in depicting a membrane surface in pymol? The > archives showed a similar question from John Maynes but no answer. > I would like to render my protein above a membrane surface as cover art for a > soon-to-be published paper.
I'm not entirely sure I understand the question, but what about this: http://bioinfo.mbb.yale.edu/people/nat/bilayer.png There are obviously lots of visible pockets (this is with a solvent radius of 1.4 - I don't know what the default is), but this seems normal. If I crank the solvent area up to 2.5, I get this: http://bioinfo.mbb.yale.edu/people/nat/bilayer2.png (These are just OpenGL rendered, of course.) The PDB file I used for this is http://bioinfo.mbb.yale.edu/people/nat/bilayer.pdb and I got it from here: http://moose.bio.ucalgary.ca/Downloads ---------------------------------------------------------------------------- Nathaniel Echols Programmer n...@bioinfo.mbb.yale.edu Gerstein Lab 203-589-6765 Yale University ----------------------------------------------------------------------------
