Don't you wanna try to use the VMD use vmd xxx.gro yyy.trr and then you could highlight your ligand
2013/6/27 Sainitin Donakonda <saigr...@gmail.com> > Hi, > > I simulated protein ligand complex for 20 ns now i want to visualize this > complex after simulation in pymol.To look ligand interactions with protein > binding site > > I tried trjconv to convert .xtc trajectory to .pdb but xtc file is too huge > with solvent molecules so pymol couldnot visualize complex > > Can anybody tell me command how to visualize protein ligand complex > trajectory in pymol > > Thanks, > Sainitin > -- > 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/Support/Mailing_Lists/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/Support/Mailing_Lists > -- 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/Support/Mailing_Lists/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/Support/Mailing_Lists
