Re: [gmx-users] P4_error for extending coarse grained MD simulations

How about using the last .gro file to continue your simulation? 2010/6/24 张春雷 > Dear GMX-users, > > This is Justin. > I am performing coarse-grained simulation on a protein-lipid bilayer > system. This is a MARTINI CG model. > I have successfully completed a 360ns simulation, during which the

Re: [gmx-users] topolbuild1_2_1.tgz decompressing problem

It works in my Window OS. 2009/8/2 Nancy > Hello, > > I downloaded "topolbuild1_2_1.tgz" from the URL: > http://www.gromacs.org/@api/deki/files/40/=topolbuild1_2_1.tgz > > However, when I tried to decompress the file, I received the following > error message: > > # tar -xvf topolbuild1_2_1.tgz

Re: [gmx-users] Martini Cg-model can not be downloaded!

Oh, sorry. I mean the browser. (IE= internet explorer) 2009/2/10 XAvier Periole > > On Feb 10, 2009, at 9:54 AM, weixin wrote: > > It's caused by the IE. > > what is IE ? > > > > > 2009/2/10 xi zhao > >> well.. it seems that there is a pr

Re: [gmx-users] Martini Cg-model can not be downloaded!

It's caused by the IE. 2009/2/10 xi zhao > well.. it seems that there is a problem in the page for downloading files > from > http://md.chem.rug.nl/~marrink/MARTINI/Parameters.html, > the cg model parameters can not be downloaded! > Th

Re: [gmx-users] Script: Loading .ndx files into PyMol

Really convenient ! Thanks. 2008/5/28 Martin Höfling <[EMAIL PROTECTED]>: > Hi all, > > here's a small script that allows loading of a gromacs index files into > pymol. > The corresponding molecule has to be loaded with preserved atom order. > > Best >Martin > >

[gmx-users] Discussion, weixin wants to chat

I've been using Google Talk and thought you might like to try it out. We can use it to call each other for free over the internet. Here's an invitation to download Google Talk. Give it a try! ------- weixin wants to stay

Re: [gmx-users] (no subject)

Is your simulation box (20*20*20 A^3) big enough? 2008/4/7 Mahnam <[EMAIL PROTECTED]>: > In God We Trust > Hello GMX users > I want to equilibrate my protein in a mix solvent, befor this work, I made > a cubic box that it contained 215 spc water and 5 proline molecule (without > protein) with

Re: [gmx-users] bilayer simulation crashes after 2 ns or 7 ns of stable runs. why does system explode

What will happen if pbc=full is used? 2008/4/4 maria goranovic <[EMAIL PROTECTED]>: > Dear All > > I am running a 128-lipid bilayer simulation with standard parameters. The > simulation abruptly crashed after 2 ns, and a look into the pdb files > suggested that bonds were being broken and eve