Re: [AMBER] is there any tutorial for membrane protein simulations for Amber 12?

From: Aron Broom <broomsday.gmail.com>
Date: Tue, 10 Apr 2012 12:47:40 -0400

Ah I see. Thanks for the quick reply.

On Tue, Apr 10, 2012 at 12:42 PM, Ross Walker <ross.rosswalker.co.uk> wrote:

> > As a quick follow-up question to this discussion (since the publication
> > is
> > not yet out and I can't find this detail in the manual): does the new
> > lipid11 forcefield get things right without the need for constant
> > surface
> > tension modifications? My understanding has been that at the moment
> > only
> > the CHARMM36 forcefield can be used with lipids without this rather
> > suspect
> > modification and still get the right densities, but I'm hoping that
> > Lipid11
> > also has this property.
>
> No, for now you need to use the constant surface tension option. We have a
> solution that will form an update to the force field (Lipid12???) once we
> have a chance to test it properly.
>
> All the best
> Ross
>
>
> /\
> \/
> |\oss Walker
>
> ---------------------------------------------------------
> | Assistant Research Professor |
> | San Diego Supercomputer Center |
> | Adjunct Assistant Professor |
> | Dept. of Chemistry and Biochemistry |
> | University of California San Diego |
> | NVIDIA Fellow |
> | http://www.rosswalker.co.uk | http://www.wmd-lab.org/ |
> | Tel: +1 858 822 0854 | EMail:- ross.rosswalker.co.uk |
> ---------------------------------------------------------
>
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-- 
Aron Broom M.Sc
PhD Student
Department of Chemistry
University of Waterloo
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Received on Tue Apr 10 2012 - 10:00:04 PDT
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