Hi Arne, this works for any kind of molecule.
Cheers, Thomas Arne Dieckmann wrote, On 05/20/12 22:56: > Hi Thomas, > > is this a general purpose script or does it only work for proteins/amino > acids? > > > Cheers, > Arne > > - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - > - - - - - - - - - - - - - > Dr. Arne Dieckmann > Houk Research Lab | University of California, Los Angeles > > On May 20, 2012, at 1:15 PM, Thomas Holder wrote: > >> Hi Doran, >> >> there is a script on the PyMOLWiki that shows VDW clashes: >> >> http://pymolwiki.org/index.php/Show_bumps >> >> There are several sculpt_vdw_vis_* settings which control the >> visualization: >> >> sculpt_vdw_vis_max >> sculpt_vdw_vis_mid >> sculpt_vdw_vis_min >> >> Cheers, >> Thomas >> >> doran...@post.tau.ac.il wrote, On 05/20/12 18:26: >>> Hi, >>> I want to make pymol show me clashes between residues vdw spheres only >>> if the clashes are above a certain clash cut off, say if the clashing >>> residues overlap by x square angstrom than its o.k, but if they >>> overlap by more then x it's should show as a clash. >>> Does anyone know of a way to do it in pymol? >>> >>> Thank you, >>> Doran -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
