AMBER: Simulating DNA Backbone in NAB

From: Adelene Sim <adelene.Stanford.EDU>
Date: Tue, 1 Apr 2008 12:23:16 -0700

Hi, I'll like to do a MD simulation of just the DNA backbone (i.e. no
side-chains, replace the bases by a H) in NAB. Is it possible to just add in
entries into the force-field library (e.g. all_nucleic94.lib), where I
remove the side chain atoms and replace them by a H atom? (Of course I'll
also change the charges on the atom.)


Are there any other files I'll need to modify? I can't seem to get this to





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Received on Fri Apr 18 2008 - 21:15:58 PDT
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