thanx a lot Justin for reply Regards parvez
On Fri, Jun 29, 2012 at 2:27 PM, Justin A. Lemkul <jalem...@vt.edu> wrote: > > > On 6/29/12 2:21 PM, Parvez khan wrote: >> >> Hi, I am trying to do polymer simulation with gromacs. I am new to >> gromacs and trying to construct topology for a system of polymer >> chains. My problem is that i am facing difficulties to creat pdb file >> for polymer chain containing 1000 monomers. I have used PRODRG server >> but it gives me a pdb and topology file up to maximum 41 monomers >> chain. I am not understanding what wrong with PRODRG server. Is there > > > Nothing is wrong. It's just that PRODRG limits how many atoms are allowed > in the input structure. > > >> any server or tool for generating db file. > > > There are lots of ways to generate a coordinate file. Here are some > suggestions: > > http://www.gromacs.org/Documentation/File_Formats/Coordinate_File#Sources > > -Justin > > -- > ======================================== > > Justin A. Lemkul, Ph.D. > Research Scientist > Department of Biochemistry > Virginia Tech > Blacksburg, VA > jalemkul[at]vt.edu | (540) 231-9080 > http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin > > ======================================== > > > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/mailman/listinfo/gmx-users > * Only plain text messages are allowed! > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > * Please don't post (un)subscribe requests to the list. Use the www > interface or send it to gmx-users-requ...@gromacs.org. > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Only plain text messages are allowed! * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
