Hi Justin and Roland, we are interested in simulating a glycosilated protein. We already have a pdb file (and psf topology) with the charmm/namd format/nomenclature. We managed to have pdb2gmx read the carbohydrate residues by adding the relative entries in the residuetypes.dat, however we have not yet been able to add the covalent bonds necessary to reproduce the correct branched carbohydrate chains. Is there any solution for that? Roland seems to have one, although suboptimal. would it be possible to share it?
Gianni -- View this message in context: http://gromacs.5086.x6.nabble.com/CHARMM36-force-field-available-for-GROMACS-tp5011701p5015779.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com. -- 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.
