You may follow the following article for some help: http://pubs.acs.org/doi/abs/10.1021/sb400168u
On Fri, Mar 28, 2014 at 7:16 PM, chetan kumar meena < chetan.shadowkillerme...@gmail.com> wrote: > try prodrug for small molecule for topology generation. > > > On Fri, Mar 28, 2014 at 3:03 PM, Gaurav Saraf IDD M Tech Biochem. Engg, IIT > (BHU) <gaurav.saraf.bc...@itbhu.ac.in> wrote: > > > Respected Sir/Ma'am > > > > I am new to the field of simulations and want to perform > > protein-peptide simulations. I am facing troubles with building the > > topology for my peptides as they contain various modified amino acids > > which the rtp does not recognise. > > > > Attachments: one of the pdb file of a lantibiotic (2KTO is the RCSB code) > > > > Thanking you, > > > > > > Yours sincerely, > > Gaurav > > School of Biochemical Engineering. > > Indian Insitute of Technology (BHU), Varanasi. > > India. > > > > -- > > Gromacs Users mailing list > > > > * Please search the archive at > > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before > > posting! > > > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > > > * For (un)subscribe requests visit > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or > > send a mail to gmx-users-requ...@gromacs.org. > > > > > > > -- > Regards > Chetan Kumar Meena > Ph.D. Bioinformatics > Pondicherry University > R28448 > PUDUCHERRY > Pin:605014 > -- > Gromacs Users mailing list > > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before > posting! > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > * For (un)subscribe requests visit > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or > send a mail to gmx-users-requ...@gromacs.org. > -- *--------------------Thanks and Regards,Bipin Singh* -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
