<table cellspacing="0" cellpadding="0" border="0" ><tr><td valign="top" style="font: inherit;">Thanx Justin...i must go throuh that tutorial.. thanx for the help. <br><br>--- On <b>Fri, 29/5/09, Justin A. Lemkul <i><jalemkul@vt.edu></i></b> wrote:<br><blockquote style="border-left: 2px solid rgb(16, 16, 255); margin-left: 5px; padding-left: 5px;"><br>From: Justin A. Lemkul <jalemkul@vt.edu><br>Subject: Re: [gmx-users] membrane protein simulation<br>To: "Discussion list for GROMACS users" <gmx-users@gromacs.org><br>Date: Friday, 29 May, 2009, 4:49 PM<br><br><div class="plainMail"><br><br>Samik Bhattacharya wrote:<br>> hi i'm new to gromacs and want to simulate a protein inside a phospholipid envelop (may be box or dodecahedron). for this i got the pdb files of both the proteins and the lipids(e.g.POPC, POPE etc). but i'm facing a lot of problems in generating the topology files as well as in running grompp as gromacs does not
support lipids. i also tested it by using the lipid.itp file in the top directory. can anyone suggest me any tutorial where i can find detailed discussion on this matter? and obviously some help in how to go for it??<br><br>Yes, there is a tutorial here:<br><br><a href="http://wiki.gromacs.org/index.php/Membrane_Simulations#Running_Membrane_Simulations" target="_blank">http://wiki.gromacs.org/index.php/Membrane_Simulations#Running_Membrane_Simulations</a><br><br>-Justin<br><br>> Thanking you in advance<br>> Shamik<br>> <br>> <br>> ------------------------------------------------------------------------<br>> Own a website.Get an unlimited package.Pay next to nothing.* Click here!. <<a href="http://in.rd.yahoo.com/tagline_ysb_website/*http://in.business.yahoo.com/" target="_blank">http://in.rd.yahoo.com/tagline_ysb_website/*http://in.business.yahoo.com/</a>><br>> <br>> <br>>
------------------------------------------------------------------------<br>> <br>> _______________________________________________<br>> gmx-users mailing list <a ymailto="mailto:gmx-users@gromacs.org" href="/mc/compose?to=gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>> <a href="http://www.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://www.gromacs.org/mailman/listinfo/gmx-users</a><br>> Please search the archive at <a href="http://www.gromacs.org/search" target="_blank">http://www.gromacs.org/search</a> before posting!<br>> Please don't post (un)subscribe requests to the list. Use the www interface or send it to <a ymailto="mailto:gmx-users-request@gromacs.org" href="/mc/compose?to=gmx-users-request@gromacs.org">gmx-users-request@gromacs.org</a>.<br>> Can't post? Read <a href="http://www.gromacs.org/mailing_lists/users.php"
target="_blank">http://www.gromacs.org/mailing_lists/users.php</a><br><br>-- ========================================<br><br>Justin A. Lemkul<br>Ph.D. Candidate<br>ICTAS Doctoral Scholar<br>Department of Biochemistry<br>Virginia Tech<br>Blacksburg, VA<br>jalemkul[at]vt.edu | (540) 231-9080<br><a href="http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin" target="_blank">http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin</a><br><br>========================================<br>_______________________________________________<br>gmx-users mailing list <a ymailto="mailto:gmx-users@gromacs.org" href="/mc/compose?to=gmx-users@gromacs.org">gmx-users@gromacs.org</a><br><a href="http://www.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://www.gromacs.org/mailman/listinfo/gmx-users</a><br>Please search the archive at <a href="http://www.gromacs.org/search" target="_blank">http://www.gromacs.org/search</a> before
posting!<br>Please don't post (un)subscribe requests to the list. Use the www interface or send it to <a ymailto="mailto:gmx-users-request@gromacs.org" href="/mc/compose?to=gmx-users-request@gromacs.org">gmx-users-request@gromacs.org</a>.<br>Can't post? Read <a href="http://www.gromacs.org/mailing_lists/users.php" target="_blank">http://www.gromacs.org/mailing_lists/users.php</a><br></div></blockquote></td></tr></table><br>
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