[AMBER] Problem related to the RMSD

From: Sindrila Dutta banik <sindrila.duttabanik.yahoo.com>
Date: Sat, 3 Nov 2012 22:25:11 +0800 (SGT)

Dear all,   I generated trajectory for 3 ns. For first 800 ps, I do 50 ps at a time. After this I generate trajectory for 200 ps at a time. As I am going to analyze the result it shows a unnatural result. I computed the RMSD and the result is natural upto 800 ps. After 800 ps, as time increase by 191.3 ps suddenly the RMSD increases too much. And after 200 ps again it comes down. The plot is shown in the attached file. Please have a look and let me know what it the problem.   With best regards Sindrila

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Received on Sat Nov 03 2012 - 07:30:02 PDT
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