PTools: an opensource molecular docking library.
Saladin A, Fiorucci S, Poulain P, Prevost C, Zacharias M, BMC Struct Biol, 2009 May 1 - link

Protein-ligand docking accounting for receptor side chain and global flexibility in normal modes: evaluation on kinase inhibitor cross docking.
May A, Zacharias M, J Med Chem, 2008 Jun 26 - link

Protein-protein docking in CAPRI using ATTRACT to account for global and local flexibility.
May A, Zacharias M, Proteins, 2007 Dec 1 - link

Energy minimization in low-frequency normal modes to efficiently allow for global flexibility during systematic protein-protein docking.
May A, Zacharias M, Proteins, 2008 Feb 15 - link

Accounting for loop flexibility during protein-protein docking.
Bastard K, Prevost C, Zacharias M, Proteins, 2006 Mar 1 - link

Accounting for global protein deformability during protein-protein and protein-ligand docking.
May A, Zacharias M, Biochim Biophys Acta, 2005 Dec 30 - link

ATTRACT: protein-protein docking in CAPRI using a reduced protein model.
Zacharias M, Proteins, 2005 Aug 1 - link

Rapid protein-ligand docking using soft modes from molecular dynamics simulations to account for protein deformability: binding of FK506 to FKBP.
Zacharias M, Proteins, 2004 Mar 1 - link

Protein-protein docking with a reduced protein model accounting for side-chain flexibility.
Zacharias M, Protein Sci, 2003 Jun - link

Combined conformational search and finite-difference Poisson-Boltzmann approach for flexible docking. Application to an operator mutation in the lambda repressor-operator complex.
Zacharias M, Luty BA, Davis ME, McCammon JA, J Mol Biol, 1994 May 6 - link