[gmx-users] Minimization problem, again!

Viswanadham Sridhara muta.mestri at gmail.com
Thu Dec 15 14:55:23 CET 2005

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,

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)
> [image: Get Firefox!]<http://www.spreadfirefox.com/?q=affiliates&id=0&t=85>
> -------------------------------
> _______________________________________________
> gmx-users mailing list
> gmx-users at gromacs.org
> http://www.gromacs.org/mailman/listinfo/gmx-users
> Please don't post (un)subscribe requests to the list. Use the
> www interface or send it to gmx-users-request at gromacs.org.

Viswanadham Sridhara,
Graduate Research Assistant,
Old Dominion University, "VIRGINIA".
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20051215/ac9b4793/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: firefox_80x15.png
Type: image/png
Size: 1063 bytes
Desc: not available
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20051215/ac9b4793/attachment.png>

More information about the gromacs.org_gmx-users mailing list