[gmx-users] analysis of POPC

Justin A. Lemkul jalemkul at vt.edu
Sat Feb 2 14:02:39 CET 2008

You can do much of the leg work yourself, you know.  If you do the Google
searching I suggested, you will find freely-available journal articles
(Biophysical Journal, others through PubMed) with lots of experimental data.


Quoting pragya chohan <pragyachohan at hotmail.com>:

> Thanks, but I did get some papers on the analysis done on POPC by MD but I
> did not get any experimental papers showing the values so that I can compare
> results of my MD with experimental data.
> If anyone happens to have such papers please send them to me at
> pragyachohan at hotmail.com.> Date: Sat, 2 Feb 2008 07:20:54 -0500> From:
> jalemkul at vt.edu> To: gmx-users at gromacs.org> Subject: Re: [gmx-users] analysis
> of POPC> > Quoting pragya chohan <pragyachohan at hotmail.com>:> > >> > hello
> users> > I am trying to do analysis after bilayer simulation. I cannot get
> any> > experimental data on POPC to validate my model with. Can the people
> who are> > working on same lipid tell me some references and also what
> analysis should> > be done of the bilayer before putting protein into it?> >
> I spent less than two minutes on Google and found papers giving all sorts of>
> experimental parameters (density, area per headgroup, bilayer thickness,
> etc). > I suggest you try the same.> > In terms of the analysis you need to
> do, that is up to what question you are> asking and why you are simulating
> this particular lipid. Refer to the> literature and find papers by groups
> that have simulated proteins in POPC (and> perhaps proteins in membranes in
> general) to determine what they have found> relevant, and apply the same to
> your system.> > -Justin> > >
> _________________________________________________________________> > Tried
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> ========================================> > Justin A. Lemkul> Graduate
> Research Assistant> Department of Biochemistry> Virginia Tech> Blacksburg,
> VA> jalemkul at vt.edu | (540) 231-9080>
> http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/> >
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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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