Development and validation of a modular, extensible docking program: DOCK 5.
Moustakas DT, Lang PT, Pegg S, Pettersen E, Kuntz ID, Brooijmans N, Rizzo RC, J Comput Aided Mol Des, 2006 Oct-Nov - link

Principles and methods of docking and ligand design.
Krumrine J, Raubacher F, Brooijmans N, Kuntz I, Methods Biochem Anal, 2003 - link

Molecular recognition and docking algorithms.
Brooijmans N, Kuntz ID, Annu Rev Biophys Biomol Struct, 2003 - link