A protein-DNA docking benchmark.
van Dijk M, Bonvin AM, Nucleic Acids Res, 2008 Aug - link

Activity-structure correlations in divergent lectin evolution: fine specificity of chicken galectin CG-14 and computational analysis of flexible ligand docking for CG-14 and the closely related CG-16.
Wu AM, Singh T, Liu JH, Krzeminski M, Russwurm R, Siebert HC, Bonvin AM, Andre S, Gabius HJ, Glycobiology, 2007 Feb - link

Solvated docking: introducing water into the modelling of biomolecular complexes.
van Dijk AD, Bonvin AM, Bioinformatics, 2006 Oct 1 - link

Information-driven protein-DNA docking using HADDOCK: it is a matter of flexibility.
van Dijk M, van Dijk AD, Hsu V, Boelens R, Bonvin AM, Nucleic Acids Res, 2006 - link

Combining NMR relaxation with chemical shift perturbation data to drive protein-protein docking.
van Dijk AD, Kaptein R, Boelens R, Bonvin AM, J Biomol NMR, 2006 Apr - link

Flexible protein-protein docking.
Bonvin AM, Curr Opin Struct Biol, 2006 Apr - link

WHISCY: what information does surface conservation yield? Application to data-driven docking.
de Vries SJ, van Dijk AD, Bonvin AM, Proteins, 2006 May 15 - link

Data-driven docking: HADDOCK's adventures in CAPRI.
van Dijk AD, de Vries SJ, Dominguez C, Chen H, Zhou HX, Bonvin AM, Proteins, 2005 Aug 1 - link

Various strategies of using residual dipolar couplings in NMR-driven protein docking: application to Lys48-linked di-ubiquitin and validation against 15N-relaxation data.
van Dijk AD, Fushman D, Bonvin AM, Proteins, 2005 Aug 15 - link

The orientations of cytochrome c in the highly dynamic complex with cytochrome b5 visualized by NMR and docking using HADDOCK.
Volkov AN, Ferrari D, Worrall JA, Bonvin AM, Ubbink M, Protein Sci, 2005 Mar - link

Data-driven docking for the study of biomolecular complexes.
van Dijk AD, Boelens R, Bonvin AM, FEBS J, 2005 Jan - link

NMR and molecular dynamics studies of an autoimmune myelin basic protein peptide and its antagonist: structural implications for the MHC II (I-Au)-peptide complex from docking calculations.
Tzakos AG, Fuchs P, van Nuland NA, Troganis A, Tselios T, Deraos S, Matsoukas J, Gerothanassis IP, Bonvin AM, Eur J Biochem, 2004 Aug - link

A docking approach to the study of copper trafficking proteins; interaction between metallochaperones and soluble domains of copper ATPases.
Arnesano F, Banci L, Bertini I, Bonvin AM, Structure, 2004 Apr - link

Structural model of the UbcH5B/CNOT4 complex revealed by combining NMR, mutagenesis, and docking approaches.
Dominguez C, Bonvin AM, Winkler GS, van Schaik FM, Timmers HT, Boelens R, Structure, 2004 Apr - link

HADDOCK: a protein-protein docking approach based on biochemical or biophysical information.
Dominguez C, Boelens R, Bonvin AM, J Am Chem Soc, 2003 Feb 19 - link