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Author Details

Alexandre M J J Bonvin
Bijvoet Center for Biomolecular Research, Utrecht University
1991
265
64
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36346597Information-Driven Antibody-Antigen Modelling with HADDOCK.Methods Mol Biol2023
36346597Information-Driven Antibody-Antigen Modelling with HADDOCK.Methods Mol Biol2023
36420989DeepRank-GNN: a graph neural network framework to learn patterns in protein-protein interfaces.Bioinformatics2023
37591722A novel antifolate suppresses growth of FPGS-deficient cells and overcomes methotrexate resistance.Life Sci Alliance2023
37905971Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment.Proteins2023
37611581An antibiotic from an uncultured bacterium binds to an immutable target.Cell2023
37237441Improving the quality of co-evolution intermolecular contact prediction with DisVis.Proteins2023
37365936Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study.Proteomics2023
36671507MetaScore: A Novel Machine-Learning-Based Approach to Improve Traditional Scoring Functions for Scoring Protein-Protein Docking Conformations.Biomolecules2023
37292624A new antibiotic from an uncultured bacterium binds to an immutable target.bioRxiv2023
37905971Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment.Proteins2023
37591722A novel antifolate suppresses growth of FPGS-deficient cells and overcomes methotrexate resistance.Life Sci Alliance2023
37611581An antibiotic from an uncultured bacterium binds to an immutable target.Cell2023
37292624A new antibiotic from an uncultured bacterium binds to an immutable target.bioRxiv2023
37237441Improving the quality of co-evolution intermolecular contact prediction with DisVis.Proteins2023
37365936Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study.Proteomics2023
36671507MetaScore: A Novel Machine-Learning-Based Approach to Improve Traditional Scoring Functions for Scoring Protein-Protein Docking Conformations.Biomolecules2023
36420989DeepRank-GNN: a graph neural network framework to learn patterns in protein-protein interfaces.Bioinformatics2023
35309507Molecular Insights Into Binding and Activation of the Human KCNQ2 Channel by Retigabine.Front Mol Biosci2022
35652781Cyclization and Docking Protocol for Cyclic Peptide-Protein Modeling Using HADDOCK2.4.J Chem Theory Comput2022
35922513Teixobactin kills bacteria by a two-pronged attack on the cell envelope.Nature2022
36402763PPARγ lipodystrophy mutants reveal intermolecular interactions required for enhancer activation.Nat Commun2022
35309507Molecular Insights Into Binding and Activation of the Human KCNQ2 Channel by Retigabine.Front Mol Biosci2022
35216656Interface refinement of low- to medium-resolution Cryo-EM complexes using HADDOCK2.4.Structure2022
35652781Cyclization and Docking Protocol for Cyclic Peptide-Protein Modeling Using HADDOCK2.4.J Chem Theory Comput2022
36402763PPARγ lipodystrophy mutants reveal intermolecular interactions required for enhancer activation.Nat Commun2022
35922513Teixobactin kills bacteria by a two-pronged attack on the cell envelope.Nature2022
35216656Interface refinement of low- to medium-resolution Cryo-EM complexes using HADDOCK2.4.Structure2022
33111403PDB-tools web: A user-friendly interface for the manipulation of PDB files.Proteins2021
35647606Characterization of nucleosome sediments for protein interaction studies by solid-state NMR spectroscopy.Magn Reson (Gott)2021
3396333650 years of PBD: a catalyst in structural biology.Nat Methods2021
33524153Integrating quantitative proteomics with accurate genome profiling of transcription factors by greenCUT&RUN.Nucleic Acids Res2021
34139639Information-driven modeling of biomolecular complexes.Curr Opin Struct Biol2021
33822911MENSAdb: a thorough structural analysis of membrane protein dimers.Database (Oxford)2021
34342983Native or Non-Native Protein-Protein Docking Models? Molecular Dynamics to the Rescue.J Chem Theory Comput2021
33111403PDB-tools web: A user-friendly interface for the manipulation of PDB files.Proteins2021
34862392DeepRank: a deep learning framework for data mining 3D protein-protein interfaces.Nat Commun2021
34395534Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem.Front Mol Biosci2021
34436890Shape-Restrained Modeling of Protein-Small-Molecule Complexes with High Ambiguity Driven DOCKing.J Chem Inf Model2021
34599175Emergence and spread of SARS-CoV-2 lineage B.1.620 with variant of concern-like mutations and deletions.Nat Commun2021
35647606Characterization of nucleosome sediments for protein interaction studies by solid-state NMR spectroscopy.Magn Reson (Gott)2021
33822911MENSAdb: a thorough structural analysis of membrane protein dimers.Database (Oxford)2021
33524153Integrating quantitative proteomics with accurate genome profiling of transcription factors by greenCUT&RUN.Nucleic Acids Res2021
34862392DeepRank: a deep learning framework for data mining 3D protein-protein interfaces.Nat Commun2021
34436890Shape-Restrained Modeling of Protein-Small-Molecule Complexes with High Ambiguity Driven DOCKing.J Chem Inf Model2021
34395534Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem.Front Mol Biosci2021
34599175Emergence and spread of SARS-CoV-2 lineage B.1.620 with variant of concern-like mutations and deletions.Nat Commun2021
3396333650 years of PBD: a catalyst in structural biology.Nat Methods2021
34342983Native or Non-Native Protein-Protein Docking Models? Molecular Dynamics to the Rescue.J Chem Theory Comput2021
34139639Information-driven modeling of biomolecular complexes.Curr Opin Struct Biol2021
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Collaborators

Rolf Boelens
Utrecht University
Co-authored papers 42
Robert Kaptein
Utrecht University
Co-authored papers 31
Jo??o P G L M Rodrigues
Stanford University
Co-authored papers 27
Panagiotis L Kastritis
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Co-authored papers 26
Adrien S J Melquiond
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Co-authored papers 20
Mikael Trellet
Co-authored papers 20
Li C Xue
Utrecht University
Co-authored papers 17
Anna Vangone
Roche Pharma Research and Early Development
Co-authored papers 16
Marc van Dijk
Co-authored papers 16
Ezgi Karaca
Dokuz Eylul University
Co-authored papers 16
Brian Jim??nez-Garc??a
Utrecht University
Co-authored papers 14
Cunliang Geng
Co-authored papers 13
Aalt D J van Dijk
Wageningen University and Research
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Marc Baldus
Bijvoet Center for Biomolecular Research, Utrecht University
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Gydo C P van Zundert
Utrecht University
Co-authored papers 13
Jorge Roel-Touris
Co-authored papers 10
Shoshana J Wodak
VIB-VUB Center for Structural Biology
Co-authored papers 9
Jörg Schaarschmidt
Co-authored papers 9
Zhiping Weng
University of Massachusetts Medical School
Co-authored papers 8
Juan Fern??ndez-Recio
Instituto de Ciencias de la Vid y del Vino (ICVV-CSIC)
Co-authored papers 8
Sameer Velankar
European Bioinformatics Institute
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Koen Visscher
Inscopix Inc.
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Iain H Moal
GSK Medicines Research Centre
Co-authored papers 7
Geerten W Vuister
Leicester Institute of Structural and Chemical Biology, University of Leicester
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Paul A Bates
The Francis Crick Institute
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Francesco Ambrosetti
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Rodrigo V Honorato
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Xiaoqin Zou
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Release 1.2