AMBER Archive (2008)

Subject: AMBER: Simulating DNA Backbone in NAB

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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
work.

Thanks!

Adelene

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• Next message: Furia Gargano: "AMBER: B-factor"
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