Re: [AMBER] Constant surface tension on the membrane

From: James Starlight <jmsstarlight.gmail.com>
Date: Mon, 9 Jun 2014 23:24:08 +0400

Thanks Ben!

Could you tell me if constant surface tension (which as I understood is the
restriction on the lipids head motion along x-y planes) might some
influence on the protein which is embedded into such tensionless bilayer?
In particular I'm interesting if it can influence conformational dynamics
of the protein (for instance damping of some collective modes)?

James


2014-06-09 22:53 GMT+04:00 Benjamin D Madej <bmadej.ucsd.edu>:

> Hi James,
>
> For the full story, I'd take a look at the GAFFlipid, Lipid11, and Lipid14
> papers. Lipid14 is a lipid force field for tensionless bilayer simulations.
>
> In case you're looking for those references here they are:
> http://dx.doi.org/10.1021/ct4010307
> http://dx.doi.org/10.1021/jp3059992
> http://dx.doi.org/10.1039/C2SM26007G
>
> All the best,
> Ben Madej
> UCSD Chemistry and Biochemistry
> SDSC
>
> ________________________________________
> From: Jason Swails [jason.swails.gmail.com]
> Sent: Friday, June 06, 2014 5:27 AM
> To: AMBER Mailing List
> Subject: Re: [AMBER] Constant surface tension on the membrane
>
> On Fri, Jun 6, 2014 at 4:28 AM, James Starlight <jmsstarlight.gmail.com>
> wrote:
>
> > Dear Amber users!
> >
> > Occasionally I heard something about constant surface tension concept
> > applied to the Ambers membrane simulation. Does the CST is applied during
> > the membrane simulations (for instance using anisotropic scaling) or just
> > have been applied for the parametrization of the lipids in lipid11 ff?
> >
>
> ‚ÄčLipid 11. The Amber 14 manual discusses the various lipid force fields in
> chapter 3 section 8.
>
> The lipid 11 and lipid 14 papers are also good references (citations
> provided in the manual).
> ‚Äč
> --
> Jason M. Swails
> BioMaPS,
> Rutgers University
> Postdoctoral Researcher
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Received on Mon Jun 09 2014 - 12:30:04 PDT
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