> Dear Vitaly Chaban > > yes. my md simulation is equilibrioum. > > I did simulation of protein-dna. I want to know how protein and dna close > together and interact together (approach of protein to major groove of dna). > > thanks alot in advance.
Dear leila, Please look towards g_rmsdist utility of the gromacs package. This seems to be better for your needs than g_msd. Good luck. Vitaly Dr. Vitaly Chaban -- gmx-users mailing list gmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
