From: <sun...@al...> - 2013-06-28 07:14:42
|
Dear pymol users, I want to make a cross-section on a ion tunnel protein to cut it in half and observe the intenal characters of the tunnel. According to materials on web, I runed the following commands: hide all show surface set ray_trace_mode, 0 set two_sided_lighting, off set ray_interior_color, grey50 But I didn't see any obvious change on the structure except that the protein became dim. Could you help me with that? Tnanks in advance! Yeping Sun |
From: Jason V. <jas...@sc...> - 2013-07-01 16:05:37
|
Hi Yeping, The technique will differ depending on the structure you have. Can you send me a copy and I can try to put something together for you? If it's a homodimer, usually we can just disable one unit and show the open channel. Also, see http://hollow.sourceforge.net/channel.html and http://www.pymolwiki.org/index.php/Biochemistry_student_intro#Movie_of_Epidermal_Growth_Factor . Cheers, -- Jason On Fri, Jun 28, 2013 at 2:14 AM, <sun...@al...> wrote: > > > > > Dear pymol users, > > I want to make a cross-section on a ion tunnel protein to cut it in half > and observe the intenal characters of the tunnel. According to materials on > web, I runed the following commands: > > hide all > show surfaceset ray_trace_mode, 0set two_sided_lighting, offset ray_interior_color, grey50 > > > > But I didn't see any obvious change on the structure except that the protein became dim. Could you help me with that? > > Tnanks in advance! > > > > Yeping Sun > > > > ------------------------------------------------------------------------------ > This SF.net email is sponsored by Windows: > > Build for Windows Store. > > http://p.sf.net/sfu/windows-dev2dev > _______________________________________________ > PyMOL-users mailing list (PyM...@li...) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pym...@li... > -- Jason Vertrees, PhD Director of Core Modeling Products Schrödinger, Inc. (e) Jas...@sc... (o) +1 (603) 374-7120 |