Dear all, I have read through the journal which David suggested. So,I am wonder how to generate the graph that show the comparison of the stability of cylindrical and sperical micell ( as stated as Figure 2 in that paper)
Thanks. --- On Tue, 9/23/08, David van der Spoel <[EMAIL PROTECTED]> wrote: > From: David van der Spoel <[EMAIL PROTECTED]> > Subject: Re: [gmx-users] Forming a micelles > To: "Discussion list for GROMACS users" <gmx-users@gromacs.org> > Date: Tuesday, September 23, 2008, 1:16 PM > Chih-Ying Lin wrote: > > Hi > > I heard that it takes very long to see a micelle > forming. > > How long should be the simulation time to see the > micelle forming? > > How many nanoseconds to put on the simulation? > > > > > > Is there any particular difference to simulate the > micelles than other system? > > My simulation steps are > > 1. prepare the topology files and coordinate files for > the water and the solute > > 2. do the minimisation > > 3. generate the simulation box > > 4. put water and solute together > > 5. run MD with longer simulation time > > @Article{ Marrink2000a, > author = "S. J. Marrink and D. P. Tieleman > and A. E. Mark", > title = "Molecular dynamics simulation of > the kinetics of > spontaneous micelle formation", > journal = "J Phys Chem B", > year = 2000, > volume = 104, > pages = "12165-12173" > } > > > > > > > Thank you > > Lin > > _______________________________________________ > > gmx-users mailing list gmx-users@gromacs.org > > http://www.gromacs.org/mailman/listinfo/gmx-users > > Please search the archive at > http://www.gromacs.org/search before posting! > > Please don't post (un)subscribe requests to the > list. Use the > > www interface or send it to > [EMAIL PROTECTED] > > Can't post? Read > http://www.gromacs.org/mailing_lists/users.php > > > -- > David. > ________________________________________________________________________ > David van der Spoel, PhD, Assoc. Prof., Molecular > Biophysics group, > Dept. of Cell and Molecular Biology, Uppsala University. > Husargatan 3, Box 596, 75124 Uppsala, Sweden > phone: 46 18 471 4205 fax: 46 18 511 755 > [EMAIL PROTECTED] [EMAIL PROTECTED] > http://folding.bmc.uu.se > ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > _______________________________________________ > gmx-users mailing list gmx-users@gromacs.org > http://www.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at http://www.gromacs.org/search > before posting! > Please don't post (un)subscribe requests to the list. > Use the > www interface or send it to [EMAIL PROTECTED] > Can't post? Read > http://www.gromacs.org/mailing_lists/users.php _______________________________________________ gmx-users mailing list gmx-users@gromacs.org http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php