Alexandre M.J.J. Bonvin
Alexandre M.J.J. Bonvin
Professor of Computational Structural Biology, Bijvoet Center for Biomolecular Research, Faculty of
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HADDOCK: a protein-protein docking approach based on biochemical or biophysical information
C Dominguez, R Boelens, AMJJ Bonvin
Journal of the American Chemical Society 125 (7), 1731-1737, 2003
21832003
The HADDOCK web server for data-driven biomolecular docking
SJ De Vries, M Van Dijk, AMJJ Bonvin
Nature protocols 5 (5), 883-897, 2010
9082010
Refinement of protein structures in explicit solvent
JP Linge, MA Williams, CAEM Spronk, AMJJ Bonvin, M Nilges
Proteins: Structure, Function, and Bioinformatics 50 (3), 496-506, 2003
6122003
HADDOCK versus HADDOCK: new features and performance of HADDOCK2. 0 on the CAPRI targets
SJ de Vries, ADJ van Dijk, M Krzeminski, M van Dijk, A Thureau, V Hsu, ...
Proteins: structure, function, and bioinformatics 69 (4), 726-733, 2007
5642007
Structure and flexibility adaptation in nonspecific and specific protein-DNA complexes
CG Kalodimos, N Biris, AMJJ Bonvin, MM Levandoski, M Guennuegues, ...
Science 305 (5682), 386-389, 2004
4962004
The nisin–lipid II complex reveals a pyrophosphate cage that provides a blueprint for novel antibiotics
STD Hsu, E Breukink, E Tischenko, MAG Lutters, B De Kruijff, R Kaptein, ...
Nature structural & molecular biology 11 (10), 963-967, 2004
4582004
The HADDOCK2. 2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes
GCP van Zundert, J Rodrigues, M Trellet, C Schmitz, PL Kastritis, ...
Journal of molecular biology 428 (4), 720-725, 2016
4492016
Plectasin, a fungal defensin, targets the bacterial cell wall precursor Lipid II
T Schneider, T Kruse, R Wimmer, I Wiedemann, V Sass, U Pag, A Jansen, ...
Science 328 (5982), 1168-1172, 2010
3792010
Structural basis for signal-sequence recognition by the translocase motor SecA as determined by NMR
I Gelis, AMJJ Bonvin, D Keramisanou, M Koukaki, G Gouridis, ...
Cell 131 (4), 756-769, 2007
3562007
The α‐to‐β Conformational Transition of Alzheimer's Aβ‐(1–42) Peptide in Aqueous Media is Reversible: A Step by Step Conformational Analysis Suggests the Location of β …
S Tomaselli, V Esposito, P Vangone, NAJ van Nuland, AMJJ Bonvin, ...
ChemBioChem 7 (2), 257-267, 2006
3362006
RECOORD: a recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank
AJ Nederveen, JF Doreleijers, W Vranken, Z Miller, CAEM Spronk, ...
PROTEINS: Structure, Function, and Bioinformatics 59 (4), 662-672, 2005
3192005
Flexible protein-protein docking
AMJJ Bonvin
Current opinion in structural biology 16 (2), 194-200, 2006
3152006
Sequence co-evolution gives 3D contacts and structures of protein complexes
TA Hopf, CPI Schärfe, JP Rodrigues, AG Green, O Kohlbacher, C Sander, ...
Elife 3, e03430, 2014
2752014
3D-DART: a DNA structure modelling server
M Van Dijk, AMJJ Bonvin
Nucleic acids research 37 (suppl 2), W235-W239, 2009
2472009
On the binding affinity of macromolecular interactions: daring to ask why proteins interact
PL Kastritis, AMJJ Bonvin
Journal of The Royal Society Interface 10 (79), 20120835, 2013
2422013
Data‐driven docking for the study of biomolecular complexes
ADJ Van Dijk, R Boelens, AMJJ Bonvin
The FEBS journal 272 (2), 293-312, 2005
2062005
A structure‐based benchmark for protein–protein binding affinity
PL Kastritis, IH Moal, H Hwang, Z Weng, PA Bates, AMJJ Bonvin, J Janin
Protein Science 20 (3), 482-491, 2011
2052011
Are Scoring Functions in Protein− Protein Docking Ready to Predict Interactomes? Clues from a Novel Binding Affinity Benchmark
PL Kastritis, AMJJ Bonvin
J. Proteome Res 10 (2), 921-922, 2011
1992011
Are Scoring Functions in Protein− Protein Docking Ready To Predict Interactomes? Clues from a Novel Binding Affinity Benchmark
PL Kastritis, AMJJ Bonvin
Journal of proteome research 9 (5), 2216-2225, 2010
1992010
Information-driven protein–DNA docking using HADDOCK: it is a matter of flexibility
M Van Dijk, ADJ Van Dijk, V Hsu, R Boelens, AMJJ Bonvin
Nucleic acids research 34 (11), 3317-3325, 2006
1772006
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Artikelen 1–20