Hi there... If you want to generate your morph-pdbs with sensible geometry, try this script: http://www.molmovdb.org/molmovdb/morph/download/morph_dist.inp
It requires CNS, but if you have start and end, it interpolates smoothly, using all atoms, without distorting geometry of side chains and so on. Can give very nice results, and is fully compatible with pymol. D On 28/02/07, Clara Marco <cma...@ibv.csic.es> wrote:
Hi! I'm trying to build a morphing movie to show the transition between two conformational states of a protein. I've run morphing with program LSQMAN, which has generated intermediate pdb files between start.pdb and end.pdb.The problem is that to avoid geometry distortions I've used a LSQMAN option that only uses CA's and few side chains (selected by proximity of the ligand that induces the conformational change), and now, the intermediate pdbs only have CA's coordinates. Is there any possibility to represent these pdb's with pymol (cartoon/ribbon)? I've tried it but it only represents points/spheres corresponding to the CA's. If not, does anyone know how to calculate morphing intermediate pdb's suitable to be represented with pymol? Thank you very much. Clara Clara Marco-Marin Instituto de Biomedicina de Valencia Consejo Superior de Investigaciones Cientificas C/Jaime Roig, 11 46010 Valencia España ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
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