[gmx-users] RMSD

[Apramita Chand]

Dear All,
If I want to show difference in RMSD of peptide conformations in different
solution compositions, what should I choose as reference structure so that
more representative figure is formed?
The .tpr file that I should choose for reference structure should be the
file after equilibration steps or before equilibration steps?


Thanking you,
yours sincerely
Apramita Chand