Hi Angelo, instead of calculating RMSD you could monitor pairwise helix angles over states. See attached script, it depends on the http://www.pymolwiki.org/index.php/AngleBetweenHelices script.
Cheers, Thomas On Thu, Mar 10, 2011 at 12:05 AM, Angelo Rossi <angelo.raymond.ro...@gmail.com> wrote: > Hello: > > I have a protein with several helices and believe only one of them (the one > closest to that active center) moves significantly during a simulation. > > Can someone suggest a way to use pymol to highlight the movement of the > helices in this protein. I want to select 20 structures from a trajectory, > highlight each helix in the protein and hopefully it will show significant > movement of this specific responsible for activity. > > Thank you for any help you can provide. > > Kind regards, > > Angelo
monitorhelices.py
Description: Binary data
------------------------------------------------------------------------------ Colocation vs. Managed Hosting A question and answer guide to determining the best fit for your organization - today and in the future. http://p.sf.net/sfu/internap-sfd2d
_______________________________________________ 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