Search Results - "de Beauchene, Isaure Chauvot"

HIPPO: HIstogram-based Pseudo-POtential for scoring protein-ssRNA fragment-based docking poses by Kravchenko, Anna, de Vries, Sjoerd Jacob, Smaïl-Tabbone, Malika, Chauvot de Beauchene, Isaure

“…The RNA-Recognition motif (RRM) is a protein domain that binds single-stranded RNA (ssRNA) and is present in as much as 2% of the human genome. Despite this…”
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Modeling large protein–glycosaminoglycan complexes using a fragment‐based approach by Samsonov, Sergey A., Zacharias, Martin, Chauvot de Beauchene, Isaure

“…Glycosaminoglycans (GAGs), a major constituent of the extracellular matrix, participate in cell‐signaling by binding specific proteins. Structural data on…”
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Protein‐protein and peptide‐protein docking and refinement using ATTRACT in CAPRI by Schindler, Christina E. M., Chauvot de Beauchêne, Isaure, de Vries, Sjoerd J., Zacharias, Martin

“…ABSTRACT The ATTRACT coarse‐grained docking approach in combination with various types of atomistic, flexible refinement methods has been applied to predict…”
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Mutation D816V alters the internal structure and dynamics of c-KIT receptor cytoplasmic region: implications for dimerization and activation mechanisms by Laine, Elodie, Chauvot de Beauchêne, Isaure, Perahia, David, Auclair, Christian, Tchertanov, Luba

“…The type III receptor tyrosine kinase (RTK) KIT plays a crucial role in the transmission of cellular signals through phosphorylation events that are associated…”
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Binding Site Identification and Flexible Docking of Single Stranded RNA to Proteins Using a Fragment-Based Approach by Chauvot de Beauchene, Isaure, de Vries, Sjoerd J, Zacharias, Martin

“…Protein-RNA docking is hampered by the high flexibility of RNA, and particularly single-stranded RNA (ssRNA). Yet, ssRNA regions typically carry the…”
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Cryo-EM Data Are Superior to Contact and Interface Information in Integrative Modeling by de Vries, Sjoerd J., Chauvot de Beauchêne, Isaure, Schindler, Christina E.M., Zacharias, Martin

“…Protein-protein interactions carry out a large variety of essential cellular processes. Cryo-electron microscopy (cryo-EM) is a powerful technique for the…”
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Rapid Design of Knowledge-Based Scoring Potentials for Enrichment of Near-Native Geometries in Protein-Protein Docking by Sasse, Alexander, de Vries, Sjoerd J, Schindler, Christina E M, de Beauchêne, Isaure Chauvot, Zacharias, Martin

“…Protein-protein docking protocols aim to predict the structures of protein-protein complexes based on the structure of individual partners. Docking protocols…”
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Conformational variability in proteins bound to single‐stranded DNA: A new benchmark for new docking perspectives by Mias‐Lucquin, Dominique, Chauvot de Beauchene, Isaure

“…We explored the Protein Data Bank (PDB) to collect protein–ssDNA structures and create a multi‐conformational docking benchmark including both bound and…”
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Docking software performance in protein-glycosaminoglycan systems by Uciechowska-Kaczmarzyk, Urszula, Chauvot de Beauchene, Isaure, Samsonov, Sergey A.

“…We present a benchmarking study for protein-glycosaminoglycan systems with eight docking programs: Dock, rDock, ClusPro, PLANTS, HADDOCK, Hex, SwissDock and…”
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EROS-DOCK: protein–protein docking using exhaustive branch-and-bound rotational search by Ruiz Echartea, Maria Elisa, Chauvot de Beauchêne, Isaure, Ritchie, David W

“…Abstract Motivation Protein–protein docking algorithms aim to predict the 3D structure of a binary complex using the structures of the individual proteins…”
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Fragment-based modelling of single stranded RNA bound to RNA recognition motif containing proteins by de Beauchene, Isaure Chauvot, de Vries, Sjoerd J, Zacharias, Martin

“…Protein-RNA complexes are important for many biological processes. However, structural modeling of such complexes is hampered by the high flexibility of RNA…”
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Hotspot mutations in KIT receptor differentially modulate its allosterically coupled conformational dynamics: impact on activation and drug sensitivity by Chauvot de Beauchêne, Isaure, Allain, Ariane, Panel, Nicolas, Laine, Elodie, Trouvé, Alain, Dubreuil, Patrice, Tchertanov, Luba

“…Receptor tyrosine kinase KIT controls many signal transduction pathways and represents a typical allosterically regulated protein. The mutation-induced…”
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A Web Interface for Easy Flexible Protein-Protein Docking with ATTRACT by de Vries, Sjoerd J., Schindler, Christina E.M., Chauvot de Beauchêne, Isaure, Zacharias, Martin

“…Protein-protein docking programs can give valuable insights into the structure of protein complexes in the absence of an experimental complex structure. Web…”
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Characterization of S628N: a novel KIT mutation found in a metastatic melanoma by Vita, Marina, Tisserand, Julie C, Chauvot de Beauchêne, Isaure, Panel, Nicolas, Tchertanov, Luba, Agopian, Julie, Mescam-Mancini, Lenaïg, Fouet, Bernard, Fournier, Béatrice, Dubreuil, Patrice, Bertucci, François, De Sepulveda, Paulo

“…IMPORTANCE The KIT receptor is mutated in approximately 15%of acral, mucosal, and chronic, sun-damaged melanomas. The status of KIT mutations is of interest…”
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ProtNAff: protein-bound Nucleic Acid filters and fragment libraries by Moniot, Antoine, Guermeur, Yann, de Vries, Sjoerd Jacob, Chauvot de Beauchene, Isaure

“…Abstract Motivation Atomistic models of nucleic acids (NA) fragments can be used to model the 3D structures of specific protein–NA interactions and address the…”
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Insight on Mutation-Induced Resistance from Molecular Dynamics Simulations of the Native and Mutated CSF-1R and KIT by Da Silva Figueiredo Celestino Gomes, Priscila, Chauvot De Beauchêne, Isaure, Panel, Nicolas, Lopez, Sophie, De Sepulveda, Paulo, Geraldo Pascutti, Pedro, Solary, Eric, Tchertanov, Luba

“…The receptors tyrosine kinases (RTKs) for the colony stimulating factor-1, CSF-1R, and for the stem cell factor, SCFR or KIT, are important mediators of signal…”
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Exploration of DNA processing features unravels novel properties of ICE conjugation in Gram-positive bacteria by Laroussi, Haifa, Aoudache, Yanis, Robert, Emilie, Libante, Virginie, Thiriet, Louise, Mias-Lucquin, Dominique, Douzi, Badreddine, Roussel, Yvonne, Chauvot de Beauchêne, Isaure, Soler, Nicolas, Leblond-Bourget, Nathalie

“…Abstract Integrative and conjugative elements (ICEs) are important drivers of horizontal gene transfer in prokaryotes. They are responsible for antimicrobial…”
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CroMaSt: a workflow for assessing protein domain classification by cross-mapping of structural instances between domain databases and structural alignment by Dhondge, Hrishikesh, Chauvot de Beauchêne, Isaure, Devignes, Marie-Dominique

“…Abstract Motivation Protein domains can be viewed as building blocks, essential for understanding structure–function relationships in proteins. However, each…”
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HSP70 sequestration by free α-globin promotes ineffective erythropoiesis in β-thalassaemia by Arlet, Jean-Benoît, Ribeil, Jean-Antoine, Guillem, Flavia, Negre, Olivier, Hazoume, Adonis, Marcion, Guillaume, Beuzard, Yves, Dussiot, Michaël, Moura, Ivan Cruz, Demarest, Samuel, de Beauchêne, Isaure Chauvot, Belaid-Choucair, Zakia, Sevin, Margaux, Maciel, Thiago Trovati, Auclair, Christian, Leboulch, Philippe, Chretien, Stany, Tchertanov, Luba, Baudin-Creuza, Véronique, Seigneuric, Renaud, Fontenay, Michaela, Garrido, Carmen, Hermine, Olivier, Courtois, Geneviève

“…In human β-thalassaemiaerythroblasts, HSP70 is sequestered in the cytoplasm by the excess of free α-globin chains and can no longer protect the master…”
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The First 3D Model of the Full-Length KIT Cytoplasmic Domain Reveals a New Look for an Old Receptor by Inizan, François, Hanna, Myriam, Stolyarchuk, Maxim, Chauvot de Beauchêne, Isaure, Tchertanov, Luba

“…Receptor tyrosine kinases (RTKs) are key regulators of normal cellular processes and have a critical role in the development and progression of many diseases…”
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