Depth: a web server to compute depth, cavity sizes, detect potential small-molecule ligand-binding cavities and predict the pKa of ionizable residues in proteins

Protein Model Discrimination Using Mutational Sensitivity Derived from Deep Sequencing

(2012) Bharat V. Adkar et al.   STRUCTURE

Identification of cavities on protein surface using multiple computational approaches for drug binding site prediction

(2011) Z. Zhang et al.   BIOINFORMATICS

Biological insights from topology independent comparison of protein 3D structures

(2011) Minh N. Nguyen et al.   NUCLEIC ACIDS RESEARCH

CLICK—topology-independent comparison of biomolecular 3D structures

(2011) M. N. Nguyen et al.   NUCLEIC ACIDS RESEARCH

DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins

(2011) Kuan Pern Tan et al.   NUCLEIC ACIDS RESEARCH

Roll: a new algorithm for the detection of protein pockets and cavities with a rolling probe sphere

(2009) Jian Yu et al.   BIOINFORMATICS

Fpocket: An open source platform for ligand pocket detection

(2009) Vincent Le Guilloux et al.   BMC BIOINFORMATICS

McVol - A program for calculating protein volumes and identifying cavities by a Monte Carlo algorithm

(2009) Mirco S. Till et al.   JOURNAL OF MOLECULAR MODELING

Detection of multiscale pockets on protein surfaces using mathematical morphology

(2009) Takeshi Kawabata   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

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

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

Benchmarking pKaPrediction Methods for Residues in Proteins

(2008) Courtney L. Stanton et al.   Journal of Chemical Theory and Computation