Re: AMBER: Modified nucleotides

From: Thomas Cheatham <>
Date: Mon, 12 Feb 2007 22:03:38 -0700 (Mountain Standard Time)

> I am planning to do some MD simulations of modified nucleic acids. Is it
> reasonable to use the am1-bcc charges for the modified nucleotides?

It is not clear, but I would expect it to be OK. However, you might as
well take advantage of the resource of the Santalucia group if you can, see:


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Received on Wed Feb 14 2007 - 06:07:33 PST
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