1 citations · 1 across the 4 of their papers we have counts for
4 papers
A Global and Local Structure-Based Method for Predicting Binary Protein-Protein Interaction Partners: Proof of Principle and Feasibility
Vicente M. Reyes
We report a 3D structure-based method of predicting protein-protein interaction partners. It involves screening for pairs of tetrahedra representing interacting amino acids at the…
Structure-Based Function Prediction of Functionally Unannotated Structures in the PDB: Prediction of ATP, GTP, Sialic Acid, Retinoic Acid and Heme-bound and -Unbound (Free) Nitric Oxide Protein Binding Sites
Vicente M. Reyes
Due to increased activity in high-throughput structural genomics efforts around the globe, there has been an accumulation of experimental protein 3D structures lacking functional a…
Two Complementary Methods for Relative Quantification of Ligand Binding Site Burial Depth in Proteins: The "Cutting Plane" and "Tangent Sphere" Methods
Vicente M. Reyes
We describe two complementary methods to quantify the degree of burial of ligand and/or ligand binding site (LBS) in a protein-ligand complex, namely, the "cutting plane" (CP) and…
An Automatable Analytical Algorithm for Structure-Based Protein Functional Annotation via Detection of Specific Ligand 3D Binding Sites: Application to ATP (ser/thr Protein Kinases) and GTP (Small Ras-type G-Proteins) Binding Sites
Vicente M. Reyes
We have developed an analytical, ligand-specific and scalable algorithm that detects a "signature" of the 3D binding site of a given ligand in a protein 3D structure. The said sign…