Alexandre MJJ Bonvin, Ph.D.
Affiliations: | 1989-1994 | Chemistry | Utrecht University, Utrecht, Netherlands |
| 1994-1996 | Molecular Biophysics and Biochemistry | Yale University, New Haven, CT | |
| 1996-1998 | Physical Chemistry | Eidgenössische Technische Hochschule Zürich, Zürich, ZH, Switzerland | |
| 1998- | Chemistry | Utrecht University, Utrecht, Netherlands |
Area:
Protein-protein interactions, dockingWebsite:
https://www.uu.nl/staff/amjjbonvinGoogle:
"alexandre bonvin"Bio:
https://www.uu.nl/staff/amjjbonvin/CV
Cross-listing: Neurotree - Chemistry Tree
Parents
Sign in to add mentor| Rolf Boelens | grad student | 1993 | Utrecht (Neurotree) | |
| Robert Kaptein | grad student | 1993 | Utrecht (Chemistry Tree) | |
| (Determination of biomolecular structures by NMR. Use of relaxation matrix calculations) | ||||
| Axel Brunger | post-doc | Yale (Chemistry Tree) | ||
| Wilfred F. van Gunsteren | research scientist | 1996-1998 | ETH Zürich (Physics Tree) | |
Children
Sign in to add trainee| Charlotte van Noort | grad student | 2019- | Utrecht (Neurotree) |
| Cyril Dominguez | grad student | 2000-2004 | Utrecht (Chemistry Tree) |
| Shang-Te Danny Hsu | grad student | 2000-2005 | Utrecht (Neurotree) |
| Aalt-Jan van Dijk | grad student | 2002-2006 | Utrecht (Neurotree) |
| Marc van Dijk | grad student | 2004-2009 | Utrecht (Neurotree) |
| Mickaël Krzeminski | grad student | 2004-2009 | Utrecht (Neurotree) |
| Sjoerd De Vries | grad student | 2005-2010 | Utrecht (Neurotree) |
| Panagiotis L. Kastritis | grad student | 2008-2012 | Utrecht (Neurotree) |
| Ezgi Karaca | grad student | 2008-2013 | Utrecht (Chemistry Tree) |
| João PGLM Rodrigues | grad student | 2010-2014 | Utrecht (Chemistry Tree) |
| Gydo van Zundert | grad student | 2012-2016 | Utrecht (Neurotree) |
| Cunliang Geng | grad student | 2014-2018 | Utrecht (Neurotree) |
| Panagiotis Koukos | grad student | 2016-2020 | Utrecht (Neurotree) |
| Francesco Ambrosetti | grad student | 2017-2020 | Utrecht (Neurotree) |
| Jorge Roel Touris | grad student | 2017-2021 | Utrecht (Neurotree) |
| Zeynep Kurkcuoglu | post-doc | 2015- | Utrecht (Neurotree) |
| Rodrigo Vargas Honorato | post-doc | 2019- | Utrecht (Neurotree) |
| Manon Reau | post-doc | 2020- | Utrecht (Neurotree) |
| Gloria Fuentes | post-doc | 2002-2006 | (Chemistry Tree) |
| Aurelien Thureau | post-doc | 2005-2006 | Utrecht (Neurotree) |
| Jeff Grinstead | post-doc | 2004-2007 | Utrecht (Neurotree) |
| Ludovic Carlier | post-doc | 2007-2008 | Utrecht (Neurotree) |
| Tsjerk Wassenaar | post-doc | 2006-2009 | Utrecht (Neurotree) |
| Nuno L. Ferreira | post-doc | 2008-2010 | Utrecht (Neurotree) |
| Christian Koehler | post-doc | 2009-2010 | Utrecht (Neurotree) |
| Alexey Neumoin | post-doc | 2009-2010 | Utrecht (Neurotree) |
| Dirk Straatman | post-doc | 2009-2010 | Utrecht (Neurotree) |
| Christophe Schmitz | post-doc | 2010-2012 | Utrecht (Neurotree) |
| Adrien SJ Melquiond | post-doc | 2007-2013 | Utrecht (Neurotree) |
| Anna Vangone | post-doc | 2013-2017 | Utrecht (Neurotree) |
| Irina Moreira | post-doc | 2016-2018 | Utrecht (Neurotree) |
| Joerg Schaarschmidt | post-doc | 2016-2018 | Utrecht (Neurotree) |
| Mikael Trellet | post-doc | 2016-2019 | Utrecht (Neurotree) |
| Attilio Vargiu | post-doc | 2018-2019 | Utrecht (Neurotree) |
| Zuzana Jandova | post-doc | 2019-2020 | Utrecht (Physics Tree) |
| Brian Jimenez Garcia | post-doc | 2018-2021 | Utrecht (Neurotree) |
| Li Xue | research scientist | 2015-2019 | Utrecht (Neurotree) |
Collaborators
Sign in to add collaborator| Victor L. Hsu | collaborator | 2005-2005 | Utrecht (Physics Tree) |
BETA: Related publications
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Publications
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| Basciu A, Malloci G, Koukos P, et al. (2020) EDES: A Protocol to Generate Holo-Like and Druggable Protein Conformations Starting from the APO Structure Biophysical Journal. 118: 44a |
| Geng C, Narasimhan S, Rodrigues JP, et al. (2017) Information-Driven, Ensemble Flexible Peptide Docking Using HADDOCK. Methods in Molecular Biology (Clifton, N.J.). 1561: 109-138 |
| van Zundert GC, Trellet M, Schaarschmidt J, et al. (2016) The DisVis and PowerFit web servers: Explorative and Integrative Modeling of Biomolecular Complexes. Journal of Molecular Biology |
| de Bruin RC, Stam AG, Vangone A, et al. (2016) Prevention of Vγ9Vδ2 T Cell Activation by a Vγ9Vδ2 TCR Nanobody. Journal of Immunology (Baltimore, Md. : 1950) |
| Vangone A, Rodrigues JP, Xue LC, et al. (2016) Sense and Simplicity in HADDOCK Scoring: Lessons from CASP-CAPRI Round1. Proteins |
| Spiliotopoulos D, Kastritis PL, Melquiond AS, et al. (2016) dMM-PBSA: A New HADDOCK Scoring Function for Protein-Peptide Docking. Frontiers in Molecular Biosciences. 3: 46 |
| Xue LC, Rodrigues JP, Kastritis PL, et al. (2016) PRODIGY: a web server for predicting the binding affinity of protein-protein complexes. Bioinformatics (Oxford, England) |
| Melo R, Fieldhouse R, Melo A, et al. (2016) A Machine Learning Approach for Hot-Spot Detection at Protein-Protein Interfaces. International Journal of Molecular Sciences. 17 |
| Geng C, Vangone A, Bonvin AM. (2016) Exploring the interplay between experimental methods and the performance of predictors of binding affinity change upon mutations in protein complexes. Protein Engineering, Design & Selection : Peds |
| Liu Y, Rodrigues JP, Bonvin AM, et al. (2016) New insight in the catalytic mechanism of bacterial MraY from enzyme kinetics and docking studies. The Journal of Biological Chemistry |