Keiko, Hmm...that is a neat idea, but no, it isn't possible. The best you can do is color a slice through the molecule.
load pot1.phi ramp_new ramp1, pot1 load prot1.pdb show surface, prot1 set surface_color, ramp1, prot1 slice_new slice1, pot1 color ramp1, slice1 set transparency, 0.2, slice1 set slice_track_camera, on, slice1 set two_sided_lighting (NOTE: beta version required for the above -- http://delsci.com/beta ) Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 . mailto:war...@delsci.com > -----Original Message----- > From: Keiko Petrosky [mailto:kpet...@itsa.ucsf.edu] > Sent: Friday, March 18, 2005 1:49 PM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] visualizing electrostatic potential for > clipped object > > How can you visualize the electrostatic potential for a > clipped object? > > I have a phi map (calculated using DelPhi) that I am > projecting onto a surface using the APBS viewer. I would > like to project the potential onto a solid slab of my > molecule. The surface is hollow, so when I use the clipping > function, I get a colored surface looking into a hollow > shell. Is it possible to get a color for the 2D surface of > the clipped moleucle? > > Thank you in advance, > Keiko > > PS: Please reply to me directly as well as to the listserv. > ---------------------------------------------------------------- > Keiko Petrosky, Ph.D. candidate Phone: 415.502.8133 > University of California San Francisco Fax: 415.514.4242 > Graduate Program in Biophysics > 600 16th Street > San Francisco, CA 94107 > > > > > ------------------------------------------------------- > SF email is sponsored by - The IT Product Guide Read honest & > candid reviews on hundreds of IT Products from real users. > Discover which products truly live up to the hype. Start reading now. > http://ads.osdn.com/?ad_id=6595&alloc_id=14396&op=click > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > > >
