Identification of binding pockets in protein structures using a knowledge-based potential derived from local structural similarities

Ligand-binding site prediction of proteins based on known fragment–fragment interactions

(2010) Kota Kasahara et al.   BIOINFORMATICS

Identification of protein binding surfaces using surface triplet propensities

(2010) Wissam Mehio et al.   BIOINFORMATICS

Modular architecture of nucleotide-binding pockets

(2010) Pier Federico Gherardini et al.   NUCLEIC ACIDS RESEARCH

Superpose3D: A Local Structural Comparison Program That Allows for User-Defined Structure Representations

(2010) Pier Federico Gherardini et al.   PLoS One

Structural motifs recurring in different folds recognize the same ligand fragments

(2009) Gabriele Ausiello et al.   BMC BIOINFORMATICS

SITEHOUND-web: a server for ligand binding site identification in protein structures

(2009) M. Hernandez et al.   NUCLEIC ACIDS RESEARCH

Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence Conservation and 3D Structure

(2009) John A. Capra et al.   PLoS Computational Biology

Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures

(2008) Mizuki Morita et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS