Re: AMBER: question - gaff and leaprc.ff03ua

From: David A. Case <>
Date: Sun, 23 Nov 2008 16:49:37 -0500

On Sun, Nov 23, 2008, oguz gurbulak wrote:
> I want to ask if I can use leaprc.ff03ua force field directly in leap (
> not doing any operations like evaluating charges or generating a prepin or
> mol2 file ) for my n-alkanes simulations ?

No. The ff03_ua library only knows about proteins, not about general organic

It's probably not hard to hand-build an n-alkane mol2 file, however. The
charges are likely to be all zero in a united atom n-alkane file, you you just
need coordinates and atom types.

[But/and: be sure you really want a united atom force field, especially going
forward to other systems (lipids?). There are some good reasons why very few
simulations use the united-atom approximation any more.]


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Received on Fri Dec 05 2008 - 16:29:30 PST
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