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المؤلفون: Aracelys López-Castilla, Benjamin Bardiaux, Nadia Izadi-Pruneyre, Olivera Francetic, Florence Cordier, Régine Dazzoni, Michael Nilges
المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Plateforme technologique de RMN biologique - Biological NMR Technological Platform, Biochimie des Interactions Macromoléculaires / Biochemistry of Macromolecular Interactions, This work was funded by the Institut Pasteur, the Centre National de la Recherche Scientifique (CNRS), the French Agence Nationale de la Recherche (ANR Synergy-T2SS ANR-19-CE11-0020-01), the Fondation pour la Recherche Médicale (Equipe FRM 2017M.DEQ20170839114)., We thank Rémy Le Meur and Bruno Vitorge for their help in NMR experiments., ANR-19-CE11-0020,SYNERGY_T2SS,Structure et fonction moléculaire du pseudopilus dans la sécrétion de protéines par lla voiè de type 2(2019), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Plateforme Technologique de RMN Biologique et HDX-MS - Biological NMR and HDX-MS Technological Platform
المصدر: Biomolecular NMR Assignments
Biomolecular NMR Assignments, Springer, 2021, 15 (2), ⟨10.1007/s12104-021-10045-4⟩
Biomolecular NMR Assignments, 2021, 15 (2), ⟨10.1007/s12104-021-10045-4⟩مصطلحات موضوعية: 0303 health sciences, Inner membrane complex, biology, Type II secretion system, Chemistry, [SDV]Life Sciences [q-bio], C-terminus, 030302 biochemistry & molecular biology, Klebsiella oxytoca, Periplasmic space, biology.organism_classification, NMR resonance assignment, Biochemistry, 03 medical and health sciences, Structural Biology, Cytoplasm, PulL, Biophysics, Secretion, Protein secondary structure, 030304 developmental biology
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6684ff74512edc70e4386ef6bf9adf45Test
https://doi.org/10.1007/s12104-021-10045-4Test -
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المؤلفون: Khamsing Vongphayloth, Delphine Chrétien, Yasaman Karami, Vilakhan Xayaphet, Sarah Temmam, Félix A. Rey, Max Bonomi, Somphavanh Somlor, Khaithong Lakeomany, Bounsavane Douangboubpha, Marc Eloit, Phetphoumin Paphaphanh, Nothasin Phommavanh, Michael Nilges, Flora Donati, Paul T. Brey, Daosavanh Sanamxay, Vincent Lacoste, Thomas Bigot, Sandie Munier, Béatrice Regnault, Sylvie van der Werf, Philippe Pérot, Eduard Baquero Salazar
المساهمون: Institut Pasteur [Paris] (IP), National University of Laos, Institut Pasteur du Laos, Réseau International des Instituts Pasteur (RIIP), The work was funded by an Institut Pasteur 'Covid Taskforce' and in part by the H2020 project 101003589 (RECOVER) grants. Field and laboratory work at IP-Laos was also funded by a UK embassy grant (Grant No. INT 2021/LOV C19 02) and Luxembourg Development special grant (Grant No. LAO/030·202324)., The authors want to thank Souand Mohamed Ali, Nicolas Da Rocha, Thonglakhone Xaybounsou, and Somsanith Chonephetsarath for their help at the bench. Next-generation sequencing was performed with the help of Biomics Platform, C2RT, Institut Pasteur, Paris, France, supported by France Génomique (ANR-10-INBS-09-09), IBISA, and the Illumina COVID-19 Projects’ offer. The work was granted access to the HPC resources of IDRIS under the allocation 2020-101592 made by GENCI. We thank the Ministry of Health and the Ministry of Natural Resources and Environments, Lao PDR, for their authorization of the field work and the Faculty of Environmental Science for its authorization of the field research collaboration., ANR-10-INBS-0009,France-Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique(2010), European Project: 101003589, H2020-SC1-PHE-CORONAVIRUS-2020,RECOVER(2020), Institut Pasteur [Paris]
مصطلحات موضوعية: 0303 health sciences, Indochinese peninsula, 030306 microbiology, Coronaviruses, SARS-CoV-2, Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), viruses, [SDV]Life Sciences [q-bio], fungi, virus diseases, Biology, Virology, cave bats, 3. Good health, Domain (software engineering), body regions, 03 medical and health sciences, spike sequence, receptor-binding domain, skin and connective tissue diseases, angiotensin-converting enzyme 2 pathway, 030304 developmental biology
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::00776ae6a52e4e1db57c498db72c8cb7Test
https://hal.science/hal-03417488Test -
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المؤلفون: Michael Nilges, Hervé Ménager, Benjamin Bardiaux, Fabrice Allain, Fabien Mareuil
المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB, French Institute of Bioinformatics (IFB) [ANR-11-INBS- 0013], INCEPTION project [PIA/ANR-16-CONV-0005], European Union [FP7-IDEAS-ERC 294809 to M.N.]. Funding for open access charge: Institut Pasteur, Paris., ANR-11-INBS-0013,IFB (ex Renabi-IFB),Institut français de bioinformatique(2011), ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016), European Project: 294809,EC:FP7:ERC,ERC-2011-ADG_20110310,BAYCELLS(2012), Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur [Paris], Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)
المصدر: Nucleic Acids Research
Nucleic Acids Research, 2020, ⟨10.1093/nar/gkaa362⟩
Nucleic Acids Research, Oxford University Press, 2020, ⟨10.1093/nar/gkaa362⟩مصطلحات موضوعية: Models, Molecular, AcademicSubjects/SCI00010, Biology, 010402 general chemistry, 01 natural sciences, Data conversion, Computational science, Mice, 03 medical and health sciences, Genetics, Animals, Humans, Nuclear Magnetic Resonance, Biomolecular, Interactive visualization, 030304 developmental biology, Structure (mathematical logic), 0303 health sciences, Proteins, computer.file_format, Standalone program, 0104 chemical sciences, [SDV.BBM.BP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biophysics, Web Server Issue, RNA, Spectrum analysis, User interface, computer, Software
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6f83e2b4bb84b27e6f1d25c44343ebbaTest
https://doi.org/10.1093/nar/gkaa362Test -
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المؤلفون: Simeon Carstens, Michael Nilges, Michael Habeck
المصدر: Proc Natl Acad Sci U S A
مصطلحات موضوعية: 0303 health sciences, education.field_of_study, Multidisciplinary, Genome, Human, Computer science, Population, Bayesian probability, Molecular Conformation, Bayes Theorem, Computational biology, Biological Sciences, Bayesian inference, Chromatin, Chromosomes, Chromosome conformation capture, 03 medical and health sciences, 0302 clinical medicine, Consensus structure, Humans, education, 030217 neurology & neurosurgery, Spatial organization, 030304 developmental biology, Genomic organization
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::51be1952b669e8a0ddd9703da9098501Test
https://doi.org/10.1073/pnas.1910364117Test -
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المؤلفون: Aracelys López-Castilla, Olivera Francetic, Yasaman Karami, Thérèse E. Malliavin, Benjamin Bardiaux, Michael Nilges, Jenny-Lee Thomassin, Andrea Ori, Nadia Izadi-Pruneyre
المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Résonance Magnétique Nucléaire des Biomolécules, Biochimie des Interactions Macromoléculaires / Biochemistry of Macromolecular Interactions, This work was funded by the Institut Pasteur, the Centre National de la Recherche Scientifique, the Fondation pour la Recherche Medicale (Equipe FRM 2017M.DEQ20170839114 to Y.K., A.C.L., N.I.P., and M.N.), the French Agence Nationale de la Recherche (grant ANR-19-CE11-0020 to O.F., N.I.P., and M.N.), the Institut Pasteur Roux-Cantarini fellowship and NSERC grant (to J.L.T.), Fulbright fellowship (to A.O.). Y.K. acknowledges the PRACE for awarding access to Piz Daint at CSCS, Switzerland., Biochimie des Interactions Macromoléculaires, This work was funded by the Institut Pasteur, the Centre National de la Recherche Scientifique, the Fondation pour la Recherche Medicale (Equipe FRM 2017M.DEQ20170839114 to YK, ACL, NIP and MN), the French Agence Nationale de la Recherche (grant ANR-19-CE11-0020 to OF, NIP and MN), the Institut Pasteur Roux- Cantarini fellowship and NSERC grant (to JLT), Fulbright fellowship (to AO). YK would like to acknowledge the PRACE for awarding access to Piz Daint at CSCS, Switzerland., ANR-19-CE11-0020,SYNERGY_T2SS,Structure et fonction moléculaire du pseudopilus dans la sécrétion de protéines par lla voiè de type 2(2019), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS)
المصدر: Structure
Structure, Elsevier (Cell Press), 2021, 29, pp.1-13. ⟨10.1016/j.str.2021.07.008⟩
Structure, 2021, 29, pp.1-13. ⟨10.1016/j.str.2021.07.008⟩مصطلحات موضوعية: Pilus assembly, Virulence, Mutagenesis (molecular biology technique), calcium binding, Molecular Dynamics Simulation, 010402 general chemistry, medicine.disease_cause, 01 natural sciences, pilus dynamics, Pilus, 03 medical and health sciences, Molecular dynamics, pilus stability, MESH: New Zealand, medicine, Escherichia coli, Type IV pili, Binding site, 030304 developmental biology, 0303 health sciences, Binding Sites, MESH: Humans, biology, Chemistry, Cryoelectron Microscopy, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [INFO.INFO-MO]Computer Science [cs]/Modeling and Simulation, molecular dynamics, 0104 chemical sciences, [SDV.BBM.BP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biophysics, MESH: Drug Industry, Enterohemorrhagic Escherichia coli, Fimbriae, Bacterial, Pilin, biology.protein, Biophysics, EHEC, Fimbriae Proteins, MESH: Contraceptives, Oral, Hormonal, MESH: Female
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9cb315385e8be5e822a652bf1760c066Test
https://hal-pasteur.archives-ouvertes.fr/pasteur-03380000v2/file/PIIS0969212621002586.pdfTest -
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المؤلفون: Kamolrat Somboon, Oliver Melling, Maylis Lejeune, Glaucia M.S. Pinheiro, Annick Paquelin, Benjamin Bardiaux, Michael Nilges, Philippe Delepelaire, Syma Khalid, Nadia Izadi-Pruneyre
مصطلحات موضوعية: 0303 health sciences, 010304 chemical physics, Protein dynamics, Transporter, Periplasmic space, 01 natural sciences, 03 medical and health sciences, chemistry.chemical_compound, Membrane, chemistry, 0103 physical sciences, Biophysics, bacteria, Heme, 030304 developmental biology
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_________::a81fa0abf12b268f9ce2bac35da9a0a3Test
https://doi.org/10.1101/2021.04.21.440789Test -
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المؤلفون: Vincent Mallet, Guillaume Bouvier, Michael Nilges
المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Département de Biologie Computationnelle - Department of Computational Biology, V.M. is recipient of a doctoral fellowship from the INCEPTION project [PIA/ANR-16-CONV-0005] and benefits from support from the CRI through Ecole Doctorale FIRE - Programme Bettencourt., ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS)
المصدر: Bioinformatics
Bioinformatics, Oxford University Press (OUP), In press, ⟨10.1093/bioinformatics/btaa925⟩
Bioinformatics, 2021, 37 (14), pp.2064-2065. ⟨10.1093/bioinformatics/btaa925⟩مصطلحات موضوعية: Statistics and Probability, Self-organizing map, Theoretical computer science, AcademicSubjects/SCI01060, Computer science, Molecular Dynamics Simulation, Biochemistry, 03 medical and health sciences, Molecular dynamics, 0302 clinical medicine, [INFO.INFO-LG]Computer Science [cs]/Machine Learning [cs.LG], Cluster (physics), Cluster Analysis, Cluster analysis, Molecular Biology, 030304 developmental biology, 0303 health sciences, [SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM], Applications Notes, Structural Bioinformatics, Computer Science Applications, Computational Mathematics, ComputingMethodologies_PATTERNRECOGNITION, Computational Theory and Mathematics, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Algorithms, 030217 neurology & neurosurgery
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::944326fd8b8aded2757954fc31f01623Test
https://hal.archives-ouvertes.fr/hal-03122153Test -
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المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Universitat Pompeu Fabra [Barcelona] (UPF), This work was supported by the European Research Council (MN: FP7-IDEAS- ERC 294809)., We would like to thank R. Pellarin and B. Worley for helpful discussions and support. I.F.-M. acknowledges support from the Erasmus+ framework., European Project: 294809,EC:FP7:ERC,ERC-2011-ADG_20110310,BAYCELLS(2012), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)
المصدر: Structure
Structure, 2020, 28 (1), pp.75-82. ⟨10.1016/j.str.2019.10.018⟩
Structure, Elsevier (Cell Press), 2020, 28 (1), pp.75-82. ⟨10.1016/j.str.2019.10.018⟩مصطلحات موضوعية: Models, Molecular, Web server, sampling, Computer science, Protein Conformation, MESH: Cross-Linking Reagents, Context (language use), restraints, computer.software_genre, USable, Mass Spectrometry, 03 medical and health sciences, Cross-links, NRGXL, MESH: Protein Conformation, Structural Biology, MESH: Markov Chains, MESH: Proteins, [SDV.BBM.BC]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biochemistry [q-bio.BM], Molecular Biology, 030304 developmental biology, Flexibility (engineering), MESH: Mass Spectrometry, 0303 health sciences, protein complexes, Protein dynamics, 030302 biochemistry & molecular biology, Proteins, modeling, Grid, Binary Classification study, Markov Chains, Euclidean distance, Cross-Linking Reagents, [INFO.INFO-IT]Computer Science [cs]/Information Theory [cs.IT], [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Biological system, computer, Classifier (UML), MESH: Models, Molecular
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::08358c13b2a9113bafa89ed3d8c9792eTest
https://hal-pasteur.archives-ouvertes.fr/pasteur-02369173Test -
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المؤلفون: Michael Nilges, Gisele Cardoso de Amorim, Nadia Izadi-Pruneyre, Edward H. Egelman, Weili Zheng, Camille Jollivet, Olivera Francetic, Areli Luna Rico, Ingrid Guilvout, Benjamin Bardiaux
المساهمون: Bioinformatique structurale - Structural Bioinformatics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Centre de Bioinformatique, Biostatistique et Biologie Intégrative (C3BI), Résonance Magnétique Nucléaire des Biomolécules, Biochimie des Interactions Macromoléculaires / Biochemistry of Macromolecular Interactions, Université Paris Diderot - Paris 7 (UPD7), University of Virginia [Charlottesville], This work was funded by the Institut Pasteur, the Centre National de la Recherche Scientifique (CNRS), the French Agence Nationale de la Recherche (ANR-14-CE09-0004 to O.F.), the Fondation pour la Recherche Médicale (Equipe FRM 2017M.DEQ20170839114 to M.N.), the European Union FP7-IDEAS-ERC 294809 (to M.N.), and the NIH R35GM122510 (to E.H.E.). A.L.R. was funded by the Pasteur Paris University (PPU) international PhD program., We are grateful to Muriel Delepierre and Daniel Ladant for support and interest in this work., ANR-14-CE09-0004,FiberSpace,Pili de type IV et pseudopili: structure, dynamique, assemblage et fonction moléculaire(2014), European Project: 294809,EC:FP7:ERC,ERC-2011-ADG_20110310,BAYCELLS(2012), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), University of Virginia
المصدر: Structure
Structure, Elsevier (Cell Press), 2019, 27 (7), pp.1082-1093.e5. ⟨10.1016/j.str.2019.03.021⟩
Structure, 2019, 27 (7), pp.1082-1093.e5. ⟨10.1016/j.str.2019.03.021⟩مصطلحات موضوعية: Protein Conformation, alpha-Helical, Pilus assembly, Gene Expression, medicine.disease_cause, Pilus, hemorrhagic coli pilus (HCP), Structural Biology, Cloning, Molecular, 0303 health sciences, Type II secretion system, biology, [SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM], Chemistry, Escherichia coli Proteins, 030302 biochemistry & molecular biology, pilus assembly, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Recombinant Proteins, Cell biology, Molecular Docking Simulation, Enterohemorrhagic Escherichia coli, Thermodynamics, pilin structure, Fimbriae Proteins, Protein Binding, Protein subunit, Genetic Vectors, Static Electricity, Article, type 4 pili, 03 medical and health sciences, type II secretion system, medicine, Escherichia coli, Protein Interaction Domains and Motifs, Amino Acid Sequence, Cell adhesion, Molecular Biology, Nuclear Magnetic Resonance, Biomolecular, 030304 developmental biology, Binding Sites, Sequence Homology, Amino Acid, molecular modeling, Cryoelectron Microscopy, Periplasmic space, biochemical phenomena, metabolism, and nutrition, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, NMR, Kinetics, Pilin, Fimbriae, Bacterial, Mutation, biology.protein, bacteria, EHEC, cryo-EM, Protein Conformation, beta-Strand, Sequence Alignment
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::09e3c0ec8db3905a47314f8afe1f2ef4Test
https://hal.archives-ouvertes.fr/hal-02326222/documentTest -
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المؤلفون: Michael Nilges, Michael Habeck, Simeon Carstens
مصطلحات موضوعية: 0303 health sciences, education.field_of_study, Population, Structure (category theory), Probabilistic logic, Large population, Bayesian inference, Chromatin, Chromosome conformation capture, 03 medical and health sciences, 0302 clinical medicine, Yield (chemistry), education, Biological system, 030217 neurology & neurosurgery, 030304 developmental biology, Mathematics
الوصول الحر: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::feea72414c92d3c5106406ca02e6f7b9Test
