[gmx-users] Understanding of POPC analysis

Justin A. Lemkul jalemkul at vt.edu
Mon Sep 1 13:12:28 CEST 2008

minnale wrote:
> Hi all,
>       this may be trivial question to you. I am unfamiliar with gromacs. 
> My doubt is that in POPC analysis most of the cases concerning about 
> Z-axis why not X and Y. Can you please clear me this doubt.
> Thanks in advance for your suggestion.

By convention, we think of bilayers in the x-y plane, with the normal to the 
bilayer lying along the z-axis.  In a practical sense, it is also very 
convenient to use semiisotropic pressure coupling (applied in the x/y and z 
dimensions) for membranes.


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Justin A. Lemkul
Graduate Research Assistant
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080


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