Doug, Rotate transforms atomic coordinates (relative to the precomputed field). Try using "turn" to move the camera instead.
turn y,180 etc. Cheers, Warren -- DeLano Scientific LLC Subscriber Support Services mailto:supp...@delsci.com -----Original Message----- From: pymol-users-boun...@lists.sourceforge.net [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf Of Douglas Kojetin Sent: Tuesday, July 22, 2008 9:33 AM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] distorted electrostatic surface color with PyMOL/APBS Hi All, I am having some problems with surface display of the output from the APBS plugin distributed with PyMOL (version 1.1r0) using the "color by potential on sol. acc. surf." option. Steps to reproduce the problem: 1. Load in a structure. 2. Perform the APBS calculation (execute "Set grid" and "Run APBS" functions/buttons). 3. Show the electrostatics on the molecular surface under the Visualization tab. I used the following options Low = -5 High = 5 "solvent accessible surface" = selected "color by potential on sol. acc. surf." = selected The initial surface displayed looks OK, and there are no problems if I rotate the molecule using the mouse. However, if I attempt to rotate the molecule using a command such as "rotate y, 180",, the surface coloring is distorted. If I execute "rotate y, 180" again, then rotate by hand, the distortion on the problematic surface-side disappears. However, if I execute "rotate y, 180" once, or some iteration != 360, then rotate the molecule using the mouse, the color distortion is present and will not disappear with subsequent rotate commands. Thanks in advance for help, Doug ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
