[gmx-users] Re: problem in g_membed
jalemkul at vt.edu
Mon Jul 29 15:19:58 CEST 2013
On 7/29/13 9:10 AM, pavithrakb wrote:
> the reason for selecting POPE doesn't have much valid reason. I mean, I have
> referred previous works and in the recent work they have used POPE membrane
> for my protein (the exact protein) simulation. I have searched literature on
> selecting a membrane for simulation to know/understand why they have
> selected the particular membrane. But couldn't find put the reason why?.
The choice of a membrane is nearly as significant as the choice of the force
field that represents the system. The chosen lipid model should be
representative of the membrane environment that the protein will most likely
experience. POPE is common for bacterial membranes, while POPC is common for
eukaryotic systems. More complex models (rafts, etc) exist in the literature
and are relevant in some cases.
Justin A. Lemkul, Ph.D.
Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201
jalemkul at outerbanks.umaryland.edu | (410) 706-7441
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