Dear amber-users:
I have a question about the improper dihedral in ff03 united atom forcefield. As we know, in order to prevent inversion of the stereochemistry of sp3 carbons, the united atom CH groups - sp3 carbons with one implicit hydrogen should be designed with improper dihedral parameters. However in frcmod.ff03ua, I can't see any improper dihedral parameters dealing with CH group. If I want to simulate some alkanes with branch, can I use the 03 united atoms? If so, how does it deal with improper dihedrals?
This confuses me a lot, will somebody give me some explanation? Thanks very much in advance.
Shanshan Qin
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Received on Wed Jul 23 2008 - 06:07:45 PDT
