Edit your pdb as per ur rtp file / forcefield. On 16/06/2009, Justin A. Lemkul <jalem...@vt.edu> wrote: > > > > nitu sharma wrote: > >> Dear all, >> >> i am trying to simulation of dna-protein complex using >> gromacs with amber port . I am using amber99 port with gromacs-4.0.3 >> version. I am facing problem in running pdb2gmx command .The error comes >> like this- >> ------------------------------------------------------- >> Program pdb2gmx, VERSION 4.0.3 >> Source code file: resall.c, line: 426 >> >> Fatal error: >> Residue 'T' not found in residue topology database >> >> Can anyone suggest me how can I overcome this problem . >> >> > > http://oldwiki.gromacs.org/index.php/Errors#Residue_.27XXX.27_not_found_in_residue_topology_database > > -Justin > > Thanks a lot in advance. >> >> Nitu sharma >> Jawaherlal Nehru University >> >> >> ------------------------------------------------------------------------ >> >> _______________________________________________ >> gmx-users mailing list gmx-users@gromacs.org >> http://lists.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 gmx-users-requ...@gromacs.org. >> Can't post? Read http://www.gromacs.org/mailing_lists/users.php >> > > -- > ======================================== > > Justin A. Lemkul > Ph.D. Candidate > ICTAS Doctoral Scholar > 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 > 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 gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/mailing_lists/users.php >
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