Nevermind, I made one using VMD, it solvated my protien just fine. ----- Original Message ----- From: WILLIAM R WELCH <[EMAIL PROTECTED]> Date: Friday, February 2, 2007 3:25 pm Subject: [gmx-users] genbox using TIP3P? To: Discussion list for GROMACS users <[email protected]>
> Hello > I would like to use the TIP3P model in my calculation, and I would > like to be able to use genbox to solvate a pepetide, but there is no > TIP3P.gro coordinate file in the program. I there such a coordinate > file available? > Will > > ----- Original Message ----- > From: [EMAIL PROTECTED] > Date: Friday, February 2, 2007 11:46 am > Subject: [gmx-users] fitting procedure in g_rmsf > To: [email protected] > > > > Hello, > > > > I have a rather basic query. > > I want to know which atoms of the reference structure will be used > for > > fitting , in g_rmsf program. > > In the program g_rms there are separate options for fitting and > > calcualation of rmsd. I wonder if it is possible for the user to > > select a > > set of atoms for fitting and calculate the rmsf over another range > of > > atoms or the whole protein, similar as in g_rms program. > > > > Waiting for your suggessions. > > > > sridhar > > > > _______________________________________________ > > gmx-users mailing list [email protected] > > 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 [EMAIL PROTECTED] > > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > _______________________________________________ > gmx-users mailing list [email protected] > 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 [EMAIL PROTECTED] > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > _______________________________________________ gmx-users mailing list [email protected] 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 [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
