Patent ID: 7894995
Filing Date: 2011-02-22
Classification: G16B

Abstract:
1. A method executed on a processing unit, the method comprising: providing an optimized set of weighted contact potentials, the set of optimized weighted contact potentials optimized utilizing one or more machine learning algorithms; choosing a set of distances according to a structural template relating to a contact between a protein and a peptide, the set of distances defining minimum distances of the contact between amino acids of the protein and an amino acids of a peptide; determining a score that rates the contact between the protein and the peptide, the score determined by evaluating the protein sequence and peptide sequence data according to the set of distances and the optimized set of weighted contact potentials; inferring a hidden variable representing information about geometry of a protein-peptide complex to facilitate evaluating the contact between the protein and the peptide, wherein the inferring occurs by defining distances for the set of distances from structural data corresponding to the protein sequence; and utilizing the hidden variable to influence the protein sequence.