We are optimizing a force-field to be used with our coarsegrained
protein model for the recognition of protein -protein binding.
We have found that, apart from ranking correctly the ligand-receptor
conformations generated in a protein-protein docking algorithm, our
model is able to distinguish binding (experimental structure) from
nonbinding (false positive) conformations for many complexes. This
suggests us that the model could have a good performance in
complete cross-docking, a method aimed to recognize the possible
binding between any two proteins that are unknown to interact.Peer Reviewe
