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
