[gmx-users] topology servers versus ff.

[maria khan]

Dear gromacs users..

while using charmm27 can i use PRODRUG for topology building.??

when im using prodrug pdb2gmx gives me error of missing atoms but when i
use charmm ff,it doesnt give me that error,so proceeding with charmm27 i
made ligand topology by prodrug and used it for further simulation,when
comes to adding ions step it gives me error of ""atomtypes CH3 not found"".

thanks.