Dear Amber Community,
I've looked through the archives and I've seen some notes about some of
the protein forcefields are compatible with D-amino acids, but I didn't
find anything specific about whether there were special steps one has to
take to simulate protein systems with mixed D and L amino acid
chiralities. Are there?
One thing I've noticed is that programs like pdb4amber doesn't recognize
amino acid names like 'DLY' for D-lysine, so I've been changing the
names back to their L- versions.
Thank you for your help,
Nate Guerin
Duke University
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Received on Mon Feb 07 2022 - 17:30:02 PST
