I think if you use sleap and issue the "set default write14scale on"
command, leap will write the correct scaling for each part of your system in
the topology file. However, you will need Amber 11 or PMEMD in AMBER 10 to
use this topology file with different scaling factors.
All the best,
Emmanuel.
On Tue, Nov 30, 2010 at 6:55 PM, Lishan Yao <yaolisha.msu.edu> wrote:
> Dear Amber users:
> We try to set up a md simulation for a protein sugar complex. We plan
> to use amber ff99sb force field for the protein and GLYCAM force field for
> the sugar. In ff98sb force field scee is set to 1.2 and scnb is set to 2.0,
> but in GLYCAM scee = scnb = 1.0. My question is that how this is handled in
> amber? Are the paramters set differently and saved in the topology?
>
> Best,
> Lishan
>
>
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Received on Tue Nov 30 2010 - 18:30:04 PST
