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authFullName_s : Michael Nilges
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Quantitative Structural Interpretation of Protein Crosslinks

Isaac Filella-Merce , Benjamin Bardiaux , Michael Nilges , Guillaume Bouvier
Structure, 2020, 28 (1), pp.75-82. ⟨10.1016/j.str.2019.10.018⟩
Journal articles pasteur-02369173v1
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quicksom: Self-Organizing Maps on GPUs for clustering of molecular dynamics trajectories

Vincent Mallet , Michael Nilges , Guillaume Bouvier
Bioinformatics, 2021, 37 (14), pp.2064-2065. ⟨10.1093/bioinformatics/btaa925⟩
Journal articles hal-03122153v1

Normal mode analysis suggests a quaternary twist model for the nicotinic receptor gating mechanism.

Antoine Taly , Marc Delarue , Thomas Grutter , Michael Nilges , Nicolas Le Novere , et al.
Biophysical Journal, 2005, 88 (6), pp.3954-65. ⟨10.1529/biophysj.104.050229⟩
Journal articles pasteur-00162514v1
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Tuning interval Branch-and-Prune for protein structure determination

Bradley Worley , Florent Delhommel , Florence Cordier , Thérèse Malliavin , Benjamin Bardiaux , et al.
Journal of Global Optimization, 2018, 72 (1), pp.109-127. ⟨10.1007/s10898-018-0635-0⟩
Journal articles pasteur-01921275v2
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Nicotine reverses hypofrontality in animal models of addiction and schizophrenia.

Fani Koukouli , Marie Rooy , Dimitrios Tziotis , Kurt A Sailor , Heidi C O'Neill , et al.
Nature Medicine, 2017, 23 (3), pp.347-353. ⟨10.1038/nm.4274⟩
Journal articles pasteur-01452384v1
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Structural biology by NMR: structure, dynamics, and interactions.

Phineus R L Markwick , Thérèse Malliavin , Michael Nilges
PLoS Computational Biology, 2008, 4 (9), pp.e1000168. ⟨10.1371/journal.pcbi.1000168⟩
Journal articles pasteur-01570032v1
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In Silico screening on the three-dimensional model of the Plasmodium vivax SUB1 protease leads to the validation of a novel anti-parasite compound.

Anthony Bouillon , David Giganti , Christophe Benedet , Olivier Gorgette , Stéphane Pêtres , et al.
Journal of Biological Chemistry, 2013, 288, pp.18561-73. ⟨10.1074/jbc.M113.456764⟩
Journal articles pasteur-01457905v1

Allosteric Communication within the Cytoplasmic Region of the Histidine Kinase CpxA, Revealed by Molecular Dynamics Simulations of the Wild-Type and M228V Proteins

Marlet Martinez , Nathalie Duclert , Jean-Michel Betton , Pedro M. Alzari , Michael Nilges , et al.
Biophysical Journal, 2016, 108 (2), supplement 1, 184A. ⟨10.1016/j.bpj.2014.11.1016⟩
Journal articles pasteur-01300941v1
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Shelling the Voronoi interface of protein-protein complexes reveals patterns of residue conservation, dynamics and composition

Benjamin Bouvier , Raik Grünberg , Michael Nilges , Frédéric Cazals
Proteins - Structure, Function and Bioinformatics, 2009, 76 (3), pp.677-692. ⟨10.1002/prot.22381⟩
Journal articles hal-00796032v1
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Discrimination of agonists versus antagonists of nicotinic ligands based on docking onto AChBP structures.

Antoine Taly , Claire Colas , Thérèse Malliavin , Arnaud Blondel , Michael Nilges , et al.
Journal of Molecular Graphics and Modelling, 2011, 30, pp.100-9. ⟨10.1016/j.jmgm.2011.06.008⟩
Journal articles pasteur-01459822v1

An automatic tool to analyze and cluster macromolecular conformations based on self-organizing maps.

Guillaume Bouvier , Nathan Desdouits , Mathias Ferber , Arnaud Blondel , Michael Nilges
Bioinformatics, 2015, 31 (9), pp.1490-1492. ⟨10.1093/bioinformatics/btu849⟩
Journal articles pasteur-01145388v1
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Identification of novel leishmanicidal molecules by virtual and biochemical screenings targeting Leishmania eukaryotic translation initiation factor 4A

Emna Harigua-Souiai , Yosser Zina Abdelkrim , Imen Bassoumi-Jamoussi , Ons Zakraoui , Guillaume Bouvier , et al.
PLoS Neglected Tropical Diseases, 2018, 12 (1), pp.e0006160. ⟨10.1371/journal.pntd.0006160⟩
Journal articles pasteur-01968424v1
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Building Graphs To Describe Dynamics, Kinetics, and Energetics in the d -ALa: d -Lac Ligase VanA

Nathalie Duclert-Savatier , Guillaume Bouvier , Michael Nilges , Thérèse Malliavin
Journal of Chemical Information and Modeling, 2016, 56 (9), pp.1762 - 1775. ⟨10.1021/acs.jcim.6b00211⟩
Journal articles hal-01907205v1
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Structural insights into serine-rich fimbriae from Gram-positive bacteria.

Stéphanie Ramboarina , James A Garnett , Meixian Zhou , Yuebin Li , Zhixiang Peng , et al.
Journal of Biological Chemistry, 2010, 285 (42), pp.32446-57. ⟨10.1074/jbc.M110.128165⟩
Journal articles pasteur-01500608v1
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Host-Pathogen Adhesion as the Basis of Innovative Diagnostics for Emerging Pathogens

Alex van Belkum , Carina Almeida , Benjamin Bardiaux , Sarah V Barrass , Sarah J Butcher , et al.
Diagnostics, 2021, 11 (7), pp.1259. ⟨10.3390/diagnostics11071259⟩
Journal articles hal-03331223v1

NMR Exchange Format: a unified and open standard for representation of NMR restraint data

Aleksandras Gutmanas , Paul D Adams , Benjamin Bardiaux , Helen M. Berman , David Case , et al.
Nature Structural and Molecular Biology, 2015, 22, pp.433-434. ⟨10.1038/nsmb.3041⟩
Journal articles hal-01187684v1
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SAXS Merge : an automated statistical method to merge SAXS profiles using Gaussian processes

Yannick G. Spill , Seung Joong Kim , Dina Schneidman-Duhovny , Daniel Russel , Ben Webb , et al.
Journal of Synchrotron Radiation, 2014, 21 (1), pp.203 - 208. ⟨10.1107/S1600577513030117⟩
Journal articles pasteur-01402996v1

Accurate NMR structures through minimization of an extended hybrid energy.

Michael Nilges , Aymeric Bernard , Benjamin Bardiaux , Thérèse Malliavin , Michael Habeck , et al.
Structure, 2008, 16 (9), pp.1305-12. ⟨10.1016/j.str.2008.07.008⟩
Journal articles pasteur-01570038v1

Structural and functional studies of titin’s fn3 modules reveal conserved surface patterns and binding to myosin S1 - a possible role in the frank-starling mechanism of the heart

Claudia Muhle-Goll , Michael Habeck , Olivier Cazorla , Michael Nilges , Siegfried Labeit , et al.
Journal of Molecular Biology, 2001, 313 (2), pp.431-447. ⟨10.1006/jmbi.2001.5017⟩
Journal articles istex hal-01824394v1
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Computational and biochemical analysis of type IV pilus dynamics and stability

Yasaman Karami , Aracelys López-Castilla , Andrea Ori , Jenny-Lee Thomassin , Benjamin Bardiaux , et al.
Structure, 2021, 29, pp.1-13. ⟨10.1016/j.str.2021.07.008⟩
Journal articles pasteur-03380000v2
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1H, 15 N and 13C resonance assignments of the C-terminal domain of PulL, a component of the Klebsiella oxytoca type II secretion system

Régine Dazzoni , Aracelys López-Castilla , Florence Cordier , Benjamin Bardiaux , Michael Nilges , et al.
Biomolecular NMR Assignments, 2021, 15 (2), ⟨10.1007/s12104-021-10045-4⟩
Journal articles hal-03331217v1

Recommendations of the wwPDB NMR validation task force

T. Montelione Gaetano , Michael Nilges , Ad Bax , Peter Güntert , Torsten Herrmann , et al.
Structure, 2013, 21 (9), pp.1563-1570. ⟨10.1016/j.str.2013.07.021⟩
Journal articles hal-00955839v1
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The iPPI-DB initiative: a community-centered database of protein–protein interaction modulators

Rachel Torchet , Karen Druart , Luis Checa Ruano , Alexandra Moine-Franel , Hélène Borges , et al.
Bioinformatics, 2021, 37 (1), pp.89-96. ⟨10.1093/bioinformatics/btaa1091⟩
Journal articles hal-03252561v1
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Conformational sampling of CpxA: Connecting HAMP motions to the histidine kinase function

Nathalie Duclert-Savatier , Guillaume Bouvier , Michael Nilges , Thérèse Malliavin
PLoS ONE, 2018, 13 (11), pp.e0207899. ⟨10.1371/journal.pone.0207899⟩
Journal articles pasteur-02330083v1
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ModBase, a database of annotated comparative protein structure models and associated resources

Ursula Pieper , Benjamin M. Webb , Guang Qiang Dong , Dina Schneidman-Duhovny , Hao Fan , et al.
Nucleic Acids Research, 2013, 42 (D1), pp.D336 - D346. ⟨10.1093/nar/gkt1144⟩
Journal articles pasteur-01414232v1
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Building Protein Atomic Models from Cryo-EM Density Maps and Residue Co-Evolution

Guillaume Bouvier , Benjamin Bardiaux , Riccardo Pellarin , Chiara Rapisarda , Michael Nilges
Biomolecules, 2022, 12 (9), pp.1290. ⟨10.3390/biom12091290⟩
Journal articles pasteur-03840876v1
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InDeep: 3D fully convolutional neural networks to assist in silico drug design on protein–protein interactions

Vincent Mallet , Luis Checa Ruano , Alexandra Moine Franel , Michael Nilges , Karen Druart , et al.
Bioinformatics, 2021, 38 (5), pp.1261 - 1268. ⟨10.1093/bioinformatics/btab849⟩
Journal articles pasteur-04102799v1
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Computational Design of Protein-Based Inhibitors of Plasmodium vivax Subtilisin-Like 1 Protease

Giacomo Bastianelli , Anthony Bouillon , Christophe Nguyen , Dung Le-Nguyen , Michael Nilges , et al.
PLoS ONE, 2014, 9 (10), ⟨10.1371/journal.pone.0109269⟩
Journal articles pasteur-01414431v1
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A role for specific collagen motifs during wound healing and inflammatory response of fibroblasts in the teleost fish gilthead seabream.

Patricia Castillo-Briceño , Dominique Bihan , Michael Nilges , Samir Hamaia , José Meseguer , et al.
Molecular Immunology, 2011, 48, pp.826-34. ⟨10.1016/j.molimm.2010.12.004⟩
Journal articles pasteur-01459869v1
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Graphical analysis of NMR structural quality and interactive contact map of NOE assignments in ARIA.

Benjamin Bardiaux , Aymeric Bernard , Wolfgang Rieping , Michael Habeck , Thérèse E Malliavin , et al.
BMC Structural Biology, 2008, 8, pp.30. ⟨10.1186/1472-6807-8-30⟩
Journal articles pasteur-01570029v1