----- Original Message ----- From: leila karami <[email protected]> Date: Tuesday, June 29, 2010 18:08 Subject: [gmx-users] g_msd and diffusion coefficent To: [email protected]
> Dear Mark Abraham> No, I want to measure something about the diffusion of my > protein to DNA (especially to major groove of DNA) in the presence of water > (as solvent). Well if you have a trajectory that diffuses the protein to your DNA, then measure the diffusion coefficient by choosing the protein group in g_rmsd. The analysis program doesn't need to know why you chose that trajectory. Finding a meaningful set of such a trajectories can be tough, however. Mark
-- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
