Hi, Tom, have a look at MSPocket: http://appserver.biotec.tu-dresden.de/MSPocket/ It uses MSMS to generate protein solvent excluded surface (SES) and then detects pockets on the SES. It also calculates the volume for cavities (internal pockets buried in proteins) based on the SES. cheers, hongbo
On 12/03/2010 06:15 PM, Thomas Evangelidis wrote: > Dear Pymol users, > > I want to display clearly the volume of a buried cavity inside my > protein. Does anybody know how to do this? I've tried CastP and Caver > plugins already, but they do not produce exactly the volume I want to > display. I would greatly appreciate any advice. > > thanks, > Tom > > > > ------------------------------------------------------------------------------ > Increase Visibility of Your 3D Game App& Earn a Chance To Win $500! > Tap into the largest installed PC base& get more eyes on your game by > optimizing for Intel(R) Graphics Technology. Get started today with the > Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. > http://p.sf.net/sfu/intelisp-dev2dev > > > > _______________________________________________ > PyMOL-users mailing list ([email protected]) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/[email protected] -- Dr. Hongbo ZHU Postdoctoral Researcher Structural Bioinformatics Technische Universität Dresden Biotechnology Center Tatzberg 47/49 01307 Dresden, Germany Tel.: +49 (0) 351 463-40083 Fax: +49 (0) 351 463-40087 E-Mail: [email protected] Webpage: www.biotec.tu-dresden.de ------------------------------------------------------------------------------ Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
