Xavier, PyMOL 0.99beta09 and earlier use a crude backbone-independent rotamer library.
However, current development versions (PyMOL 0.99beta10 on up) now provide both the Dunbrack backbone-dependent and backbone-independent rotamers. Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 USA . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 . mailto:war...@delsci.com > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Xavier Deupi > Sent: Friday, August 12, 2005 2:34 PM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] conformational states in the mutagenesis wizard > > Hi, > > I've just realized that through the mutagenesis wizard you > can view/select different conformations for a sidechain. I've > been playing around, and it seems that the conformations are > selected according to a backbone-independent rotamer library. > Am I correct? Which library has been used? > > I would also like to know if there is anybody out there using > the rotamer toggle plugin. I've just installed it, and > although it seems extremely useful, it makes PyMOL very slow > to start. I'm running PyMOL > 0.98 for MacOSX in a PowerBook G4 1GHz with 1Gb of RAM > (running MacOS X > 10.4.2) > > Thanks in advance, > > Xavier > > -- > Xavier Deupi, Ph.D. > Department of Molecular and Cellular Physiology Beckman > Center for Molecular and Genetic Medicine (B161) > 279 Campus Drive, Stanford University School of Medicine > Stanford, CA 94305 (USA) > > E-mail: xavier.de...@stanford.edu > Phone: +1 (650) 725-6497 > Fax : +1 (650) 725-8021 > > > > ------------------------------------------------------- > SF.Net email is Sponsored by the Better Software Conference & > EXPO September 19-22, 2005 * San Francisco, CA * Development > Lifecycle Practices Agile & Plan-Driven Development * > Managing Projects & Teams * Testing & QA Security * Process > Improvement & Measurement * http://www.sqe.com/bsce5sf > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > > >
