Dear Arun,
> I have a protein and a pseudo oligosaccharide complex. I used Red server
> and GLYCAM_04 forcefield to generate charges for oligosaccharide, now to
> generate topology files(prmtop and inpcrd) for complex can i use ff99SB
> forcefield?
If you use R.E.D. Server Dev./R.E.D. Python a LEaP script is generated in:
Data-R.E.D.Server/Data-Default-Proj
see leaprc.ff13q4mdfft
from this leaprc.ff13q4mdfft
you can load your PDB file; see:
# Let's load the PDB file
# Web site: http://ambermd.org/doc6/html/AMBER-sh-5.9.html#sh-5.9.44
# VAR = loadPdb Your-PDB-file.ent
you can load extra-FF etc...
regards, Francois
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Received on Mon Feb 24 2014 - 03:00:03 PST
