Your call. Is that motion significant to what you are trying to report by your observation of the RMSD?
Mark On Thu, Jun 27, 2013 at 9:03 AM, tarak karmakar <tarak20...@gmail.com> wrote: > Dear All, > > While simulating a protein, I see the rmsd fluctuates around a mean of 0.6 > nm. I carefully looked at the trajectory (VMD movie) and saw there are two > flexible terminii fluctuating with a very high amplitude contributing to > the high value of RMSD. Is it ok to report this problem with this RMSD > value? > > Thanks > Tarak > -- > 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
