RMSD

From: faride badalkhani (farideh.khamseh_at_gmail.com)
Date: Thu Jun 16 2016 - 12:42:32 CDT

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Dear NAMD experts,

I have a question regarding step by step simulations. I performed a NPT
simulation for 10 ns and then plotted the RMSD. Then I continued the
simualtion for 5 more ns. When I plot the RMSD for 15 ns the plot is
decreasing decreased from 12.5 to 0.7 when it goes from first simulation to
the second one. So, Could you give me a clue where did I make a mistake?

I am sorry if it is a silly question. I am a beginner in this area.

Regards,
Farideh

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