[gmx-users]build topology file for a molecule define with new residues

[cilpa at users.csc.fi]

hi all,
i would like make MD simulation of heparin. the only files i have is the
pdb file from protein data bank but residues in this file are unknown by
gromacs. so i have to build the topology file. Is anyone had ever built
topology files and parameters files [or have any ideas] and could help in
telling me the main steps to create those files?
geraldine cilpa
Helsinki university