[gmx-users] Protein RMSD high

tarak karmakar tarak20489 at gmail.com
Thu Jun 27 09:03:35 CEST 2013

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


More information about the gromacs.org_gmx-users mailing list