A case that only our method works. ASP-435, a residue of ribonuclease inhibitor (in yellow) in ribonuclease inhibitor-angiogenin (in green) complex [PDB:1A4Y] that we have successfully classified as a hot spot residue while Robetta, FoldX, EGAD and MINERVA failed. This residue has several nearby water molecules (in blue spheres), which may be the reason why other methods cannot predict its type successfully. These water molecules are buried water molecules are considered as part of the protein complex by our method.
Li et al. BMC Systems Biology 2011 5(Suppl 1):S5 doi:10.1186/1752-0509-5-S1-S5