[gmx-users] Minimization problem, again!

[Viswanadham Sridhara]

Hi Andrea and Liu,
Since you are discussing this topic, I have a general Question.
1.) What is the protein you are using( any ID of the protein to search in
protein data bank), and
2) what kind of membrane is it?(DPPC, DOPC??)
And how big is your initial membrane(128 , 256 or 512 lipids??).
Thanks in advance,
Viswam.

On 12/15/05, andrea spitaleri <spitaleri.andrea at hsr.it> wrote:
>
> Hi Liu,
> I explain it a bit better.  Basicaly I create my system protein/membrane
> with vmd, not taking in account possible clashes. Afterwards, I use the
> gromacs tools, genbox, in order to solvate the protein with the membrane as
> well described here:
> http://www.dddc.ac.cn/embo04/practicals/9_16.htm
> genbox remove in such way eventual clashes.
>
> I hope this is a bit clearer
>
> Regards
>
> andrea
>
> --
> -------------------------------
> Andrea Spitaleri
> Dulbecco Telethon Institute
> c/o DIBIT Scientific Institute
> Biomolecular NMR, 1B4
> Via Olgettina 58
> 20132 Milano (Italy)
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--
Viswanadham Sridhara,
Graduate Research Assistant,
Old Dominion University, "VIRGINIA".
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