Dear Users,
I am trying to run a simulation (explicit solvent,counterions) using
Amber11. The file has two different protein chains and a GTP molecule bound
to MG. I referred to the user's manual regarding preparing files for tleap
for such a molecule. It says that parameters for ligand should be specified
separately as an SDF file. Should the two protein chains be kept in
separate files too? Will that make a difference if i separate the two
chains with TER cards instead of keeping them as separate PDB files? I am a
bit confused here.
Asmi
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Received on Wed May 09 2012 - 10:30:04 PDT
