Interactions and assembly mechanisms
of proteins and peptides

Publications

Chaker, Ziyad, Pierre Chervy, Yves Boulard, Stéphane Bressanelli, Pascal Retailleau, Maité Paternostre, and Thibault Charpentier. 2021. “Systematic Method for the Exploration, Representation, and Classification of the Diphenylalanine Solvatomorphic Space.” The Journal of Physical Chemistry. B 125 (33): 9454–66. https://doi.org/10.1021/acs.jpcb.1c04203.
Marichal, Laurent, Laetitia Gargowitsch, Rafael Leite Rubim, Christina Sizun, Kalouna Kra, Stéphane Bressanelli, Yinan Dong, Sanaz Panahandeh, Roya Zandi, and Guillaume Tresset. 2021. “Relationships between RNA Topology and Nucleocapsid Structure in a Model Icosahedral Virus.” Biophysical Journal, August, S0006-3495(21)00687-1. https://doi.org/10.1016/j.bpj.2021.08.021.
Chevreuil, Maelenn, Lauriane Lecoq, Shishan Wang, Laetitia Gargowitsch, Naïma Nhiri, Eric Jacquet, Thomas Zinn, Sonia Fieulaine, Stéphane Bressanelli, and Guillaume Tresset. 2020. “Nonsymmetrical Dynamics of the HBV Capsid Assembly and Disassembly Evidenced by Their Transient Species.” The Journal of Physical Chemistry B 124 (45): 9987–95. https://doi.org/10.1021/acs.jpcb.0c05024.
Habersetzer, Johann, Mohamed Debbah, Marie-Laure Fogeron, Anja Böckmann, Stéphane Bressanelli, and Sonia Fieulaine. 2020. “In Vitro Translation of Virally-Encoded Replication Polyproteins to Recapitulate Polyprotein Maturation Processes.” Protein Expression and Purification 175 (November): 105694. https://doi.org/10.1016/j.pep.2020.105694.
Fieulaine, Sonia, Martin D. Witte, Christopher S. Theile, Maya Ayach, Hidde L. Ploegh, Isabelle Jupin, and Stéphane Bressanelli. 2020. “Turnip Yellow Mosaic Virus Protease Binds Ubiquitin Suboptimally to Fine-Tune Its Deubiquitinase Activity.” Journal of Biological Chemistry 295 (40): 13769–83. https://doi.org/10.1074/jbc.RA120.014628.
Sanchez-Guzman, Daniel, Gaël Giraudon--Colas, Laurent Marichal, Yves Boulard, Frank Wien, Jéril Degrouard, Armelle Baeza-Squiban, Serge Pin, Jean Philippe Renault, and Stéphanie Devineau. 2020. “In Situ Analysis of Weakly Bound Proteins Reveals Molecular Basis of Soft Corona Formation.” ACS Nano 14 (7): 9073–88. https://doi.org/10.1021/acsnano.0c04165.
Marichal, Laurent, Jeril Degrouard, Anouchka Gatin, Nolwenn Raffray, Jean-Christophe Aude, Yves Boulard, Sophie Combet, et al. 2020. “From Protein Corona to Colloidal Self-Assembly: The Importance of Protein Size in Protein-Nanoparticle Interactions.” Langmuir: The ACS Journal of Surfaces and Colloids 36 (28): 8218–30. https://doi.org/10.1021/acs.langmuir.0c01334.
Lafosse, Marine, Elise Cartier, Kathleen Solmont, Julie Rivollier, Djamille Azazna, Pierre Thuéry, Yves Boulard, et al. 2020. “Clickable Bambusurils to Access Multivalent Architectures.” Organic Letters 22 (8): 3099–3103. https://doi.org/10.1021/acs.orglett.0c00856.
Bolte, Susanne, Elodie Marcon, Mélanie Jaunario, Lucas Moyet, Marie-Thérèse Paternostre, Marcel Kuntz, and Anja Krieger-Liszkay. 2020. “Dynamics of the Localization of the Plastid Terminal Oxidase PTOX inside the Chloroplast.” Journal of Experimental Botany 71 (9): 2661–69. https://doi.org/10.1093/jxb/eraa074.
Marichal, Laurent, Geraldine Klein, Jean Armengaud, Yves Boulard, Stephane Chedin, Jean Labarre, Serge Pin, Jean-Philippe Renault, and Jean-Christophe Aude. 2020. “Protein Corona Composition of Silica Nanoparticles in Complex Media: Nanoparticle Size Does Not Matter.” Nanomaterials 10 (2): 240. https://doi.org/10.3390/nano10020240.
Marichal, Laurent, Gaël Giraudon--Colas, Fabrice Cousin, Antoine Thill, Jean Labarre, Yves Boulard, Jean-Christophe Aude, Serge Pin, and Jean Philippe Renault. 2019. “Protein–Nanoparticle Interactions: What Are the Protein–Corona Thickness and Organization?” Langmuir 35 (33): 10831–37. https://doi.org/10.1021/acs.langmuir.9b01373.
Chervy, Pierre, Cristina Petcut, Damien Rault, Cristelle Meriadec, Thomas Bizien, Keinny François, Joel Richard, et al. 2019. “Organic Nanoscrolls from Electrostatic Interactions between Peptides and Lipids: Assembly Steps and Structure.” Langmuir 35 (32): 10648–57. https://doi.org/10.1021/acs.langmuir.9b01542.
Ben Ouirane, Kaouther, Yves Boulard, and Stéphane Bressanelli. 2019. “The Hepatitis C Virus RNA-Dependent RNA Polymerase Directs Incoming Nucleotides to Its Active Site through Magnesium-Dependent Dynamics within Its F Motif.” The Journal of Biological Chemistry 294 (19): 7573–87. https://doi.org/10.1074/jbc.RA118.005209.
Omrane, Mohyeddine, Amanda Souza Camara, Cyntia Taveneau, Nassima Benzoubir, Thibault Tubiana, Jinchao Yu, Raphaël Guérois, et al. 2019. “Septin 9 Has Two Polybasic Domains Critical to Septin Filament Assembly and Golgi Integrity.” IScience 13 (February): 138–53. https://doi.org/10.1016/j.isci.2019.02.015.
Tubiana, Thibault, Jean-Charles Carvaillo, Yves Boulard, and Stephane Bressanelli. 2018. “TTClust: A Versatile Molecular Simulation Trajectory Clustering Program with Graphical Summaries.” Journal of Chemical Information and Modeling 58 (11): 2178–82. https://doi.org/10.1021/acs.jcim.8b00512.
Chevreuil, Maelenn, Didier Law-Hine, Jingzhi Chen, Stéphane Bressanelli, Sophie Combet, Doru Constantin, Jéril Degrouard, Johannes Möller, Mehdi Zeghal, and Guillaume Tresset. 2018. “Nonequilibrium Self-Assembly Dynamics of Icosahedral Viral Capsids Packaging Genome or Polyelectrolyte.” Nature Communications 9 (1): 3071. https://doi.org/10.1038/s41467-018-05426-8.
Lecoq, Lauriane, Shishan Wang, Thomas Wiegand, Stéphane Bressanelli, Michael Nassal, Beat H. Meier, and Anja Böckmann. 2018. “Localizing Conformational Hinges by NMR: Where Do Hepatitis B Virus Core Proteins Adapt for Capsid Assembly?” Chemphyschem: A European Journal of Chemical Physics and Physical Chemistry 19 (11): 1336–40. https://doi.org/10.1002/cphc.201800211.
Marichal, Laurent, Jean-Philippe Renault, Stéphane Chédin, Gilles Lagniel, Géraldine Klein, Jean-Christophe Aude, Carine Tellier-Lebegue, et al. 2018. “Importance of Post-Translational Modifications in the Interaction of Proteins with Mineral Surfaces: The Case of Arginine Methylation and Silica Surfaces.” Langmuir: The ACS Journal of Surfaces and Colloids 34 (18): 5312–22. https://doi.org/10.1021/acs.langmuir.8b00752.
Lecoq, Lauriane, Shishan Wang, Thomas Wiegand, Stéphane Bressanelli, Michael Nassal, Beat H. Meier, and Anja Böckmann. 2018. “Solid-State [13C-15N] NMR Resonance Assignment of Hepatitis B Virus Core Protein.” Biomolecular NMR Assignments 12 (1): 205–14. https://doi.org/10.1007/s12104-018-9810-y.
Grzela, Renata, Julien Nusbaum, Sonia Fieulaine, Francesco Lavecchia, Michel Desmadril, Naima Nhiri, Alain Van Dorsselaer, et al. 2018. “Peptide Deformylases from Vibrio Parahaemolyticus Phage and Bacteria Display Similar Deformylase Activity and Inhibitor Binding Clefts.” Biochimica Et Biophysica Acta 1866 (2): 348–55. https://doi.org/10.1016/j.bbapap.2017.10.007.
Jupin, Isabelle, Maya Ayach, Lucile Jomat, Sonia Fieulaine, and Stéphane Bressanelli. 2017. “A Mobile Loop near the Active Site Acts as a Switch between the Dual Activities of a Viral Protease/Deubiquitinase.” Edited by Richard J. Kuhn. PLOS Pathogens 13 (11): e1006714. https://doi.org/10.1371/journal.ppat.1006714.
Doerflinger, Sylvie Y., Mirko Cortese, Inés Romero-Brey, Zach Menne, Thibault Tubiana, Christian Schenk, Peter A. White, et al. 2017. “Membrane Alterations Induced by Nonstructural Proteins of Human Norovirus.” PLoS Pathogens 13 (10): e1006705. https://doi.org/10.1371/journal.ppat.1006705.
Grzela, Renata, Julien Nusbaum, Sonia Fieulaine, Francesco Lavecchia, Willy V. Bienvenut, Cyril Dian, Thierry Meinnel, and Carmela Giglione. 2017. “The C-Terminal Residue of Phage Vp16 PDF, the Smallest Peptide Deformylase, Acts as an Offset Element Locking the Active Conformation.” Scientific Reports 7 (1): 11041. https://doi.org/10.1038/s41598-017-11329-3.
Mandal, Pravat K., Deepika Shukla, Varan Govind, Yves Boulard, and Lars Ersland. 2017. “Glutathione Conformations and Its Implications for in Vivo Magnetic Resonance Spectroscopy.” Journal of Alzheimer’s Disease: JAD 59 (2): 537–41. https://doi.org/10.3233/JAD-170350.
Baquero, Eduard, Aurélie A Albertini, Hélène Raux, Abbas Abou‐Hamdan, Elisabetta Boeri‐Erba, Malika Ouldali, Linda Buonocore, et al. 2017. “Structural Intermediates in the Fusion‐associated Transition of Vesiculovirus Glycoprotein.” The EMBO Journal 36 (5): 679–92. https://doi.org/10.15252/embj.201694565.
Fieulaine, Sonia, Rodolphe Alves de Sousa, Laure Maigre, Karim Hamiche, Mickael Alimi, Jean-Michel Bolla, Abbass Taleb, et al. 2017. “Corrigendum: A Unique Peptide Deformylase Platform to Rationally Design and Challenge Novel Active Compounds.” Scientific Reports 7 (January): 39365. https://doi.org/10.1038/srep39365.
Karakas, Esra, Cyntia Taveneau, Stéphane Bressanelli, Massimo Marchi, Bruno Robert, and Stéphane Abel. 2017. “Derivation of Original RESP Atomic Partial Charges for MD Simulations of the LDAO Surfactant with AMBER: Applications to a Model of Micelle and a Fragment of the Lipid Kinase PI4KA.” Journal of Biomolecular Structure and Dynamics 35 (1): 159–81. https://doi.org/10.1080/07391102.2015.1135822.
Tubiana, Thibault, Yves Boulard, and Stéphane Bressanelli. 2017. “Dynamics and Asymmetry in the Dimer of the Norovirus Major Capsid Protein.” PloS One 12 (7): e0182056. https://doi.org/10.1371/journal.pone.0182056.
Moriceau, Lucille, Lucile Jomat, Stéphane Bressanelli, Catherine Alcaide-Loridan, and Isabelle Jupin. 2017. “Identification and Molecular Characterization of the Chloroplast Targeting Domain of Turnip Yellow Mosaic Virus Replication Proteins.” Frontiers in Plant Science 8: 2138. https://doi.org/10.3389/fpls.2017.02138.
Klein, Géraldine, Christelle Mathé, Mathilde Biola-Clier, Stéphanie Devineau, Emilie Drouineau, Elie Hatem, Laurent Marichal, et al. 2016. “RNA-Binding Proteins Are a Major Target of Silica Nanoparticles in Cell Extracts.” Nanotoxicology 10 (10): 1555–64. https://doi.org/10.1080/17435390.2016.1244299.
Fieulaine, Sonia, Rodolphe Alves de Sousa, Laure Maigre, Karim Hamiche, Mickael Alimi, Jean-Michel Bolla, Abbass Taleb, et al. 2016. “A Unique Peptide Deformylase Platform to Rationally Design and Challenge Novel Active Compounds.” Scientific Reports 6 (October): 35429. https://doi.org/10.1038/srep35429.
Akil, Abdellah, Juan Peng, Mohyeddine Omrane, Claire Gondeau, Christophe Desterke, Mickaël Marin, Hélène Tronchère, et al. 2016. “Septin 9 Induces Lipid Droplets Growth by a Phosphatidylinositol-5-Phosphate and Microtubule-Dependent Mechanism Hijacked by HCV.” Nature Communications 7 (July): 12203. https://doi.org/10.1038/ncomms12203.
Klein, Géraldine, Stéphanie Devineau, Jean Christophe Aude, Yves Boulard, Hélène Pasquier, Jean Labarre, Serge Pin, and Jean Philippe Renault. 2016. “Interferences of Silica Nanoparticles in Green Fluorescent Protein Folding Processes.” Langmuir: The ACS Journal of Surfaces and Colloids 32 (1): 195–202. https://doi.org/10.1021/acs.langmuir.5b03890.
Breiman, Adina, Sonia Fieulaine, Thierry Meinnel, and Carmela Giglione. 2016. “The Intriguing Realm of Protein Biogenesis: Facing the Green Co-Translational Protein Maturation Networks.” Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics 1864 (5): 531–50. https://doi.org/10.1016/j.bbapap.2015.11.002.
Law-Hine, Didier, Mehdi Zeghal, Stéphane Bressanelli, Doru Constantin, and Guillaume Tresset. 2016. “Identification of a Major Intermediate along the Self-Assembly Pathway of an Icosahedral Viral Capsid by Using an Analytical Model of a Spherical Patch.” Soft Matter 12 (32): 6728–36. https://doi.org/10.1039/C6SM01060A.
Law-Hine, Didier, Anil K. Sahoo, Virginie Bailleux, Mehdi Zeghal, Sylvain Prevost, Prabal K. Maiti, Stéphane Bressanelli, Doru Constantin, and Guillaume Tresset. 2015. “Reconstruction of the Disassembly Pathway of an Icosahedral Viral Capsid and Shape Determination of Two Successive Intermediates.” The Journal of Physical Chemistry Letters 6 (17): 3471–76. https://doi.org/10.1021/acs.jpclett.5b01478.
Ayach, Maya, and Stéphane Bressanelli. 2015. “Crystallization of Mutants of Turnip Yellow Mosaic Virus Protease/Ubiquitin Hydrolase Designed to Prevent Protease Self-Recognition.” Acta Crystallographica. Section F, Structural Biology Communications 71 (Pt 4): 405–8. https://doi.org/10.1107/S2053230X15003945.
Baquero, Eduard, Aurélie A. Albertini, Hélène Raux, Linda Buonocore, John K. Rose, Stéphane Bressanelli, and Yves Gaudin. 2015. “Structure of the Low PH Conformation of Chandipura Virus G Reveals Important Features in the Evolution of the Vesiculovirus Glycoprotein.” Edited by Sean Whelan. PLOS Pathogens 11 (3): e1004756. https://doi.org/10.1371/journal.ppat.1004756.
Bressanelli, S. 2015. “Kickstarting a Viral RNA Polymerase.” Science 347 (6223): 715–16. https://doi.org/10.1126/science.aaa5980.
Langlois, Chantal, Stéphanie Ramboarina, Abhishek Cukkemane, Isabelle Auzat, Benjamin Chagot, Bernard Gilquin, Athanasios Ignatiou, et al. 2015. “Bacteriophage SPP1 Tail Tube Protein Self-Assembles into β-Structure-Rich Tubes.” Journal of Biological Chemistry 290 (6): 3836–49. https://doi.org/10.1074/jbc.M114.613166.
Giglione, Carmela, Sonia Fieulaine, and Thierry Meinnel. 2015. “N-Terminal Protein Modifications: Bringing Back into Play the Ribosome.” Biochimie 114: 134–46. https://doi.org/10.1016/j.biochi.2014.11.008.
Scrima, Nathalie, Jean Lepault, Yves Boulard, David Pasdeloup, Stéphane Bressanelli, and Stéphane Roche. 2015. “Insights into Herpesvirus Tegument Organization from Structural Analyses of the 970 Central Residues of HSV-1 UL36 Protein.” The Journal of Biological Chemistry 290 (14): 8820–33. https://doi.org/10.1074/jbc.M114.612838.
Valéry, Céline, Stéphanie Deville-Foillard, Christelle Lefebvre, Nuria Taberner, Pierre Legrand, Florian Meneau, Cristelle Meriadec, et al. 2015. “Atomic View of the Histidine Environment Stabilizing Higher-PH Conformations of PH-Dependent Proteins.” Nature Communications 6: 7771. https://doi.org/10.1038/ncomms8771.
Taveneau, Cyntia, Karine Blondeau, and Stéphane Bressanelli. 2015. “Definition and Expression in E. Coli of Large Fragments from the Human Lipid Kinase Phosphatidylinositol 4-Kinase Type III Alpha, and Purification of a 1100-Residue N-Terminal Module.” Protein Expression and Purification 114: 121–27. https://doi.org/10.1016/j.pep.2015.06.018.
Stojko, Johann, Sonia Fieulaine, Stéphanie Petiot-Bécard, Alain Van Dorsselaer, Thierry Meinnel, Carmela Giglione, and Sarah Cianférani. 2015. “Ion Mobility Coupled to Native Mass Spectrometry as a Relevant Tool to Investigate Extremely Small Ligand-Induced Conformational Changes.” Analyst 140 (21): 7234–45. https://doi.org/10.1039/C5AN01311A.
Michon, Thierry, James Sturgis, and Stéphane Bressanelli. 2015. “Ingénierie Des Protéines : Construire En 3D Avec Des Protéines.” In Synthèse 2014, Micro et Nanotechnologies : Avancées, Tendances et Perspectives, Observatoire des Micro et NanoTechnologies, 40–42. http://www.omnt.fr/assets/docs/sa-2015_extrait.pdf.
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