VMD-L Mailing List

From: Seera Suryanarayana (palusoori_at_gmail.com)
Date: Tue Dec 02 2014 - 23:24:46 CST

Dear VMD users
Is it possible to calculate the rmsd value for a protein after energy
minimization?
If yes, please tell me how calculate rmsd value for the energy minimized
protein and what structure can I give as reference structure. I have done
md simulation by gromacs and I have to calculate the energy minimized
protein em.gro.

Thanks in advance
Surya
Graduate student
India.