[AMBER] Problem related with the Ptraj

From: Sindrila Dutta banik <sindrila.duttabanik.yahoo.com>
Date: Sat, 4 Jun 2011 16:44:08 +0530 (IST)

I am using ptraj to get a plot RMSD vs time. For this I have prepared a script file as described in the user manual. But it is not clear to me why I should write '.CA'. Is this is mean the RMD deviation with respect to the C alpha atom?
If I want to know the RMS deviation with respect to the backbone of protein chain what should I write in the script file?
With my best regards
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Received on Sat Jun 04 2011 - 04:30:03 PDT
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