Hello, Frank. I have done this and created a web page to tell others how to do it. I used the Uppsala Software Factory program LSQMAN to generate structures that morph from one structure to another. This is quick and easy and can be done on your own computer. The intermediate structures should not be thought of actual intermediates in the motion, but they can be useful for identifying areas of the protein that undergo movement and show general trends. There is also a server at Yale (http://www.molmovdb.org/molmovdb/ ) that will perform simulated annealing while morphing between two structures, thereby producing intermediate structures that violate fewer protein restraints.
The page I wrote is http://ginsberg.med.virginia.edu/~dcoop/Help/morph.html Good luck, David PS. I wrote this over a year ago, and I haven't kept up with Pymol changes. If you find anything that needs to be changed, let me know. ------------------------------------------- David Cooper, Ph.D. University of Virginia Molecular Physiology and Biological Physics Jordan Hall, Box 800736 1300 Jefferson Park Ave Charlottesville, VA 22908-0736 Phone: (434) 982-3151 Fax: (434) 982-1616 On Wednesday 28 July 2004 02:32 am, S. Frank Yan wrote: > Hi, > > I have two static frames of a loop structure, one is in an open form, > the other is in closed form. I would like to make an animation which > shows the transformation movement from open to closed. I was wondering > if Pymol can handle this. > > Thanks, > Frank > > > > ------------------------------------------------------- > This SF.Net email is sponsored by BEA Weblogic Workshop > FREE Java Enterprise J2EE developer tools! > Get your free copy of BEA WebLogic Workshop 8.1 today. > http://ads.osdn.com/?ad_idG21&alloc_id040&op=Click > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users
