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December 28, 2010 at 3:00 am
#4780
Anonymous
FlexPepDock coming in 3.2 is the Rosetta program for peptide docking. It’s not quite out yet.
Rosetta as a general rule does not use explicit solvent models. There are a few tools kicking around but mostly we use implicit solvent.
What specifically do you mean by annealing? I assume FlexPepDock uses either a constant temperature or an annealing gradient during its Monte Carlo search but I do not know which.