hi, I am very new to gromacs. I want to see phosphorylation effect on a protein molecule. So I have phosphorylated my protein in charmm-gui server. when i tried to generate .gro file by using pdb2gmx command line it gives me following error :
Fatal error: Residue 1 named GLY of a molecule in the input file was mapped to an entry in the topology database, but the atom N used in an interaction of type improper in that entry is not found in the input file. Perhaps your atom and/or residue naming needs to be fixed. How can I fixed this error. please help me. -- 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.