AMBER: rmsd calculation in ptraj

From: gurpreet singh <>
Date: Sat, 10 Mar 2007 18:54:50 +0530

hello amber users

i m using ptraj module in amber9 to calculate the rmsd( backbone only)
over the full trajectory, taking the crystal structure as the reference but
i m getting very high vvalues in the range of
35 to 37 although there is no major change in my structures. i tried to
find the rmsd of the individual structures of the trajectory using VMD

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Received on Sun Mar 11 2007 - 06:07:36 PDT
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