Alexandre G. de Brevern

154

Documents

Publications

	HumanLectome, an update of UniLectin for the annotation and prediction of human lectins Boris Schnider , Yacine M’rad , Jalaa El Ahmadie , Alexandre G de Brevern , Anne Imberty Nucleic Acids Research, 2024, 52 (D1), pp.D1683 - D1693. ⟨10.1093/nar/gkad905⟩ Journal articles hal-04376368v1
	Molecular dynamics of the human RhD and RhAG blood group proteins Aline Floch , Tatiana Galochkina , France Pirenne , Christophe Tournamille , Alexandre G de Brevern Frontiers in Chemistry, 2024, 12, pp.1360392. ⟨10.3389/fchem.2024.1360392⟩ Journal articles inserm-04510947v1
	General Trends of the Camelidae Antibody VHHs Domain Dynamics Akhila Melarkode Vattekatte , Julien Diharce , Joseph Rebehmed , Frédéric Cadet , Fabrice Gardebien International Journal of Molecular Sciences, 2023, 24, pp.4511. ⟨10.3390/ijms24054511⟩ Journal articles inserm-04258550v1
	BioMedInformatics, the Link between Biomedical Informatics, Biology and Computational Medicine Alexandre G de Brevern BioMedInformatics, 2023, 4, pp.1 - 7. ⟨10.3390/biomedinformatics4010001⟩ Journal articles inserm-04510907v1
	AlphaFold2 Update and Perspectives Sébastien Tourlet , Ragousandirane Radjasandirane , Julien Diharce , Alexandre G de Brevern BioMedInformatics, 2023, 3, pp.378 - 390. ⟨10.3390/biomedinformatics3020025⟩ Journal articles inserm-04258522v1
	A perspective on the sharing of docking data Samia Aci-Sèche , Stéphane Bourg , Pascal Bonnet , Joseph Rebehmed , Alexandre de Brevern Data in Brief, 2023, 49 (22), pp.109386. ⟨10.1016/j.dib.2023.109386⟩ Journal articles hal-04251910v1
	Structural Space of the Duffy Antigen/Receptor for Chemokines’ Intrinsically Disordered Ectodomain 1 Explored by Temperature Replica-Exchange Molecular Dynamics Simulations Agata Kranjc , Tarun Jairaj Narwani , Sophie Abby , Alexandre de Brevern International Journal of Molecular Sciences, 2023, 24 (17), pp.13280. ⟨10.3390/ijms241713280⟩ Journal articles hal-04256911v1
	Prediction of structural alphabet protein blocks using data mining Mirjana Maljković , Nenad Mitić , Alexandre de Brevern Biochimie, 2022, 197, pp.74-85. ⟨10.1016/j.biochi.2022.01.019⟩ Journal articles hal-03652564v1
	VHH Structural Modelling Approaches: A Critical Review Poonam Vishwakarma , Akhila Melarkode Vattekatte , Nicolas Shinada , Julien Diharce , Carla Martins International Journal of Molecular Sciences, 2022, 23 (7), pp.3721. ⟨10.3390/ijms23073721⟩ Journal articles hal-03665842v1
	Current status of PTMs structural databases: applications, limitations and prospects Alexandre de Brevern , Joseph Rebehmed Amino Acids, 2022, 54 (4), pp.575-590. ⟨10.1007/s00726-021-03119-z⟩ Journal articles hal-03690712v1
	CALR-ETdb, the database of calreticulin variants diversity in essential thrombocythemia Nora El Jahrani , Gabriel Cretin , Alexandre de Brevern Platelets, 2022, 33 (1), pp.157-167. ⟨10.1080/09537104.2020.1869712⟩ Journal articles hal-03695851v1
	New αIIbβ3 variants in 28 Turkish Glanzmann patients; structural hypothesis for complex activation by residues variations in I-EGF domains M Koker , N Sarper , C Albayrak , B Zulfikar , E Zengin Platelets, 2022, 33 (4), pp.551-561. ⟨10.1080/09537104.2021.1947481⟩ Journal articles hal-03684658v1
	SWORD2: hierarchical analysis of protein 3D structures Gabriel Cretin , Tatiana Galochkina , Yann Vander Meersche , Alexandre G de Brevern , Guillaume Postic Nucleic Acids Research, 2022, 50 (W1), pp.W732--W738. ⟨10.1093/nar/gkac370⟩ Journal articles hal-03738483v1
	Analysis of Integrin αIIb Subunit Dynamics Reveals Long-Range Effects of Missense Mutations on Calf Domains Sali Anies , Vincent Jallu , Julien Diharce , Tarun J Narwani , Alexandre G de Brevern International Journal of Molecular Sciences, 2022, 23 (2), pp.858. ⟨10.3390/ijms23020858⟩ Journal articles hal-03542900v1
	Transient association between proteins elicits alteration of dynamics at sites far away from interfaces Himani Tandon , Alexandre de Brevern , Narayanaswamy Srinivasan Structure, 2021, 29 (4), pp.371-384.e3. ⟨10.1016/j.str.2020.11.015⟩ Journal articles inserm-03543689v1
	PYTHIA: Deep Learning Approach for Local Protein Conformation Prediction Gabriel Cretin , Tatiana Galochkina , Alexandre de Brevern , Jean-Christophe Gelly International Journal of Molecular Sciences, 2021, 22 (16), pp.8831. ⟨10.3390/ijms22168831⟩ Journal articles hal-03822577v1
	Hierarchical Structure of Protein Sequence Alexei Nekrasov , Yuri Kozmin , Sergey Kozyrev , Rustam Ziganshin , Alexandre de Brevern International Journal of Molecular Sciences, 2021, 22 (15), pp.8339. ⟨10.3390/ijms22158339⟩ Journal articles hal-03538152v1
	Conformational Strain Indicated by Ramachandran Angles for the Protein Backbone Is Only Weakly Related to the Flexibility Ashraya Ravikumar , Alexandre de Brevern , Narayanaswamy Srinivasan Journal of Physical Chemistry B, 2021, 125 (10), pp.2597-2606. ⟨10.1021/acs.jpcb.1c00168⟩ Journal articles hal-03549944v1
	ABCG2 Is Overexpressed on Red Blood Cells in Ph-Negative Myeloproliferative Neoplasms and Potentiates Ruxolitinib-Induced Apoptosis Ralfs Buks , Mégane Brusson , Sylvie Cochet , Tatiana Galochkina , Bruno Cassinat International Journal of Molecular Sciences, 2021, 22 (7), pp.3530. ⟨10.3390/ijms22073530⟩ Journal articles hal-03531056v1
	Structural and evolutionary exploration of the IL-3 family and its alpha subunit receptors Jade Fogha , Jagadeesh Bayry , Julien Diharce , Alexandre de Brevern Amino Acids, 2021, 53 (8), pp.1211-1227. ⟨10.1007/s00726-021-03026-3⟩ Journal articles hal-03538521v1
	Insights into Comparative Modeling of VHH Domains Akhila Melarkode Vattekatte , Frédéric Cadet , Jean-Christophe Gelly , Alexandre de Brevern International Journal of Molecular Sciences, 2021, 22 (18), pp.9771. ⟨10.3390/ijms22189771⟩ Journal articles hal-03537422v1
	Insights into anti‐D formation in carriers of RhD variants through studies of 3D intraprotein interactions Aline Floch , France Pirenne , Aurélie Barrault , Btissam Chami , Cécile Toly‐ndour Transfusion, 2021, 61 (4), pp.1286-1301. ⟨10.1111/trf.16301⟩ Journal articles inserm-03253510v1
	A Review of the Literature Organized Into a New Database: RHeference Aline Floch , Stéphane Téletchéa , Christophe Tournamille , Alexandre de Brevern , France Pirenne Transfusion Medicine Reviews, 2021, 35 (2), pp.70-77. ⟨10.1016/j.tmrv.2021.04.002⟩ Journal articles inserm-03253477v1
	A structural entropy index to analyse local conformations in intrinsically disordered proteins Akhila Melarkode Vattekatte , Tarun Jairaj Narwani , Aline Floch , Mirjana Maljković , Soubika Bisoo Journal of Structural Biology, 2020, 210 (1), pp.107464. ⟨10.1016/j.jsb.2020.107464⟩ Journal articles inserm-02907335v1
	Investigating the Product Profiles and Structural Relationships of New Levansucrases with Conventional and Non-Conventional Substrates Andrea Hill , Salwa Karboune , Tarun Narwani , Alexandre de Brevern International Journal of Molecular Sciences, 2020, 21 (15), pp.5402. ⟨10.3390/ijms21155402⟩ Journal articles inserm-02913693v1
	Analysis of Protein Disorder Predictions in the Light of a Protein Structural Alphabet Alexandre de Brevern Biomolecules, 2020, 10 (7), pp.1080. ⟨10.3390/biom10071080⟩ Journal articles inserm-02907391v1
	Data set of intrinsically disordered proteins analysed at a local protein conformation level Akhila Melarkode Vattekatte , Tarun Jairaj Narwani , Aline Floch , Mirjana Maljković , Soubika Bisoo Data in Brief, 2020, 29, pp.105383. ⟨10.1016/j.dib.2020.105383⟩ Journal articles inserm-02907359v1
	Accurate Representation of Protein-Ligand Structural Diversity in the Protein Data Bank (PDB) Nicolas K Shinada , Peter Schmidtke , Alexandre de Brevern International Journal of Molecular Sciences, 2020, 21 (6), pp.2243. ⟨10.3390/ijms21062243⟩ Journal articles inserm-02907370v1
	Discrete analysis of camelid variable domains: sequences, structures, and in-silico structure prediction Akhila Melarkode Vattekatte , Nicolas Ken Shinada , Tarun J Narwani , Floriane Noël , Olivier Bertrand PeerJ, 2020, 8, pp.e8408. ⟨10.7717/peerj.8408⟩ Journal articles inserm-02907323v1
	Investigation of the impact of PTMs on the protein backbone conformation Pierrick Craveur , Tarun Narwani , Joseph Rebehmed , Alexandre de Brevern Amino Acids, 2019, 51 (7), pp.1065-1079. ⟨10.1007/s00726-019-02747-w⟩ Journal articles inserm-02266176v1
	PEPOP 2.0: new approaches to mimic non-continuous epitopes Vincent Demolombe , Alexandre de Brevern , Liza L. Felicori , Christophe Nguyen , Ricardo Andrez Machado de Avila BMC Bioinformatics, 2019, 20 (1), ⟨10.1186/s12859-019-2867-5⟩ Journal articles hal-02277257v1
	Benchmarking the PEPOP methods for mimicking discontinuous epitopes Vincent Demolombe , Alexandre de Brevern , Franck Molina , Géraldine Lavigne , Claude Granier BMC Bioinformatics, 2019, 20 (1), pp.738. ⟨10.1186/s12859-019-3189-3⟩ Journal articles hal-02787607v2
	Structural variations within proteins can be as large as variations observed across their homologues Iyanar Vetrivel , Alexandre de Brevern , Frédéric Cadet , Narayanaswamy Srinivasan , Bernard Offmann Biochimie, 2019, 167, pp.162-170. ⟨10.1016/j.biochi.2019.09.013⟩ Journal articles inserm-02913845v1
	In silico prediction of protein flexibility with local structure approach Tarun J. Narwani , Catherine Etchebest , Pierrick Craveur , Sylvain Léonard , Joseph Rebehmed Biochimie, 2019, 165, pp.150-155. ⟨10.1016/j.biochi.2019.07.025⟩ Journal articles inserm-02266143v1
	Halogens in Protein−Ligand Binding Mechanism: A Structural Perspective Nicolas Shinada , Alexandre de Brevern , Peter Schmidtke Journal of Medicinal Chemistry, 2019, 62 (21), pp.9341-9356. ⟨10.1021/acs.jmedchem.8b01453⟩ Journal articles inserm-02913756v1
	Short in-Frame Insertions/Deletions in the Coding Sequence of the α-Globin Gene. Consequences of the 3D Structure and Resulting Phenotypes: Hb Choisy as an Example Henri Wajcman , Alexandre de Brevern , Jean Riou , Céline Latouche , Michael C. Marden Hemoglobin, 2019, 42 (5-6), pp.287-293. ⟨10.1080/03630269.2018.1556683⟩ Journal articles inserm-02913864v1
	Prediction of the intestinal resistome by a three-dimensional structure-based method Etienne Ruppé , Amine Ghozlane , Julien Tap , Nicolas Pons , Anne-Sophie Alvarez Nature Microbiology, 2019, 4 (1), pp.112-123. ⟨10.1038/s41564-018-0292-6⟩ Journal articles pasteur-02552015v1
	Dimerization and phosphorylation of Lutheran/basal cell adhesion molecule are critical for its function in cell migration on laminin Anna Guadall , Sylvie Cochet , Olivier Renaud , Yves Colin , Caroline Le van Kim Journal of Biological Chemistry, 2019, 294 (41), pp.14911-14921. ⟨10.1074/jbc.RA119.007521⟩ Journal articles hal-02416861v1
	Discrete analyses of protein dynamics Akhila Melarkode Vattekatte , Tarun Jairaj Narwani , Pierrick Craveur , Nicolas K Shinada , Aline Floch Journal of Biomolecular Structure and Dynamics, 2019, pp.1-15. ⟨10.1080/07391102.2019.1650112⟩ Journal articles inserm-02266159v1
	Long-range molecular dynamics show that inactive forms of Protein Kinase A are more dynamic than active forms R. Kalaivani , T. J Narwani , Alexandre de Brevern , N. Srinivasan Protein Science, 2019, 28 (3), pp.543-560. ⟨10.1002/pro.3556⟩ Journal articles inserm-02913871v1
	iPBAvizu: a PyMOL plugin for an efficient 3D protein structure superimposition approach Guilhem Faure , Agnel Praveen Joseph , Pierrick Craveur , Tarun Narwani , Narayanaswamy Srinivasan Source Code for Biology and Medicine, 2019, 14 (1), ⟨10.1186/s13029-019-0075-3⟩ Journal articles inserm-02913723v1
	A minimum set of stable blocks for rational design of polypeptide chains Running head: A set of stable blocks for protein rational design Alexei N Nekrasov , Ludmila G Alekseeva , Rudolf А. Pogosyan , Dmitry A Dolgikh , M.P. P Kirpichnikov Biochimie, 2019, 160, pp.88-92. ⟨10.1016/j.biochi.2019.02.006⟩ Journal articles inserm-02266188v1
	Analysing the Structural Effect of Point Mutations of Cytotoxic Necrotizing Factor 1 (CNF1) on Lu/BCAM Adhesion Glycoprotein Association Alexandre de Brevern Toxins, 2018, 10 (3), pp.E122. ⟨10.3390/toxins10030122⟩ Journal articles inserm-01852766v1
	Protein local conformations at the light of a structural alphabet Alexandre de Brevern Biophysical Journal, 2018, 114 (3), pp.231A. ⟨10.1016/j.bpj.2017.11.1286⟩ Journal articles inserm-01852960v1
	Same but not alike: Structure, flexibility and energetics of domains in multi-domain proteins are influenced by the presence of other domains Sneha Vishwanath , Alexandre de Brevern , Narayanaswamy Srinivasan PLoS Computational Biology, 2018, 14 (2), pp.e1006008. ⟨10.1371/journal.pcbi.1006008⟩ Journal articles inserm-02147944v1
	Dynamics and deformability of α-, 310- and π-helices Tarun Narwani , Pierrick Craveur , Nicolas Shinada , Hubert Santuz , Joseph Rebehmed Archives of Biological Science, 2018, 70 (1), pp.21-31. ⟨10.2298/ABS170215022N⟩ Journal articles inserm-01585114v1
	Molecular characterization of 13 new RHD alleles Aline Floch , Aurelie Barrault , Alexandre de Brevern , Jennifer Martret , Kevin Gaillard Transfusion, 2017, 57 (4), pp. 1089-1091. ⟨10.1111/trf.14004⟩ Journal articles hal-01627823v1
	Recent advances on polyproline II. Tarun Jairaj Narwani , Hubert Santuz , Nicolas Shinada , Akhila Melarkode Vattekatte , Yassine Ghouzam Amino Acids, 2017, 49 (4), pp.705-713. ⟨10.1007/s00726-017-2385-6⟩ Journal articles inserm-01573940v1
	Knowledge-based prediction of protein backbone conformation using a structural alphabet Iyanar Vetrivel , Swapnil Mahajan , Manoj Tyagi , Lionel Hoffmann , Yves-Henri Sanejouand PLoS ONE, 2017, 12 (11), pp.e0186215. ⟨10.1371/journal.pone.0186215⟩ Journal articles hal-01677391v1
	Global analysis of VHHs framework regions with a structural alphabet Floriane Noël , Alain Malpertuy , Alexandre de Brevern Biochimie, 2016, 131, pp.11 - 19. ⟨10.1016/j.biochi.2016.09.005⟩ Journal articles inserm-01374633v1
	Extension of the classical classification of β-turns Alexandre de Brevern Scientific Reports, 2016, pp.33191 ⟨10.1038/srep33191⟩ Journal articles inserm-01374651v1
	Use of a structural alphabet to find compatible folds for amino acid sequences Swapnil Mahajan , Alexandre de Brevern , Yves-Henri Sanejouand , Narayanaswamy Srinivasan , Bernard Offmann Protein Science, 2015, 24 (1), pp.145 - 153. ⟨10.1002/pro.2581⟩ Journal articles hal-01677393v1
	mulPBA: an efficient multiple protein structure alignment method based on a structural alphabet. Sylvain Léonard , Agnel Praveen Joseph , Narayanaswamy Srinivasan , Jean-Christophe Gelly , Alexandre de Brevern Journal of Biomolecular Structure and Dynamics, 2014, 32 (4), pp.661-8. ⟨10.1080/07391102.2013.787026⟩ Journal articles inserm-00926338v1
	Correlation between local structural dynamics of proteins inferred from NMR ensembles and evolutionary dynamics of homologues of known structure. Swapnil Mahajan , Alexandre de Brevern , Bernard Offmann , Narayanaswamy Srinivasan Journal of Biomolecular Structure and Dynamics, 2014, 32 (5), pp.751-8. ⟨10.1080/07391102.2013.789989⟩ Journal articles inserm-00926204v1
	Bioinformatic analysis of the protein/DNA interface. Bohdan Schneider , Jirí Cerny , Daniel Svozil , Petr Cech , Jean-Christophe Gelly Nucleic Acids Research, 2014, 42 (5), pp.3381-94. ⟨10.1093/nar/gkt1273⟩ Journal articles inserm-00926088v1
	β-Bulges: extensive structural analyses of β-sheets irregularities. Pierrick Craveur , Agnel Praveen Joseph , Joseph Rebehmed , Alexandre de Brevern Protein Science, 2013, 22 (10), pp.1366-78. ⟨10.1002/pro.2324⟩ Journal articles inserm-00926388v1
	PRR repeats in the intracellular domain of KISS1R are important for its export to cell membrane. Lucie Chevrier , Alexandre de Brevern , Eva Hernandez , Jérome Leprince , Hubert Vaudry Mol Endocrinol, 2013, 27 (6), pp.1004-14. ⟨10.1210/me.2012-1386⟩ Journal articles inserm-00926577v1
	Cis-trans isomerization of omega dihedrals in proteins. Pierrick Craveur , Agnel Praveen Joseph , Pierre Poulain , Joseph Rebehmed , Alexandre de Brevern Amino Acids, 2013, 45 (2), pp.279-89. ⟨10.1007/s00726-013-1511-3⟩ Journal articles inserm-00926521v1
	VLDP web server: a powerful geometric tool for analysing protein structures in their environment. Jérémy Esque , Sylvain Léonard , Alexandre de Brevern , Christophe Oguey Nucleic Acids Research, 2013, 41 (Web Server issue), pp.W373-8. ⟨10.1093/nar/gkt509⟩ Journal articles inserm-00926547v1
	Understanding the role of domain-domain linkers in the spatial orientation of domains in multi-domain proteins. Ramachandra M Bhaskara , Alexandre de Brevern , Narayanaswamy Srinivasan Journal of Biomolecular Structure and Dynamics, 2013, 31 (12), pp.1467-80. ⟨10.1080/07391102.2012.743438⟩ Journal articles inserm-00926595v1
	DoSA: Database of Structural Alignments. Swapnil Mahajan , Garima Agarwal , Mohammed Iftekhar , Bernard Offmann , Alexandre de Brevern Database - The journal of Biological Databases and Curation, 2013, 2013, pp.bat048. ⟨10.1093/database/bat048⟩ Journal articles inserm-00926452v1
	Evolution study of the Baeyer-Villiger monooxygenases enzyme family: functional importance of the highly conserved residues. Joseph Rebehmed , Véronique Alphand , Véronique de Berardinis , Alexandre de Brevern Biochimie, 2013, 95 (7), pp.1394-402. ⟨10.1016/j.biochi.2013.03.005⟩ Journal articles inserm-00926584v1
	Local structural differences in homologous proteins: specificities in different SCOP classes. Agnel Praveen Joseph , Hélène Valadié , Narayanaswamy Srinivasan , Alexandre de Brevern PLoS ONE, 2012, 7 (6), pp.e38805. ⟨10.1371/journal.pone.0038805⟩ Journal articles inserm-00750286v1
	Modeling and molecular dynamics of HPA-1a and -1b polymorphisms: effects on the structure of the β3 subunit of the αIIbβ3 integrin. Vincent Jallu , Pierre Poulain , Patrick F. J. Fuchs , Cécile Kaplan , Alexandre de Brevern PLoS ONE, 2012, 7 (11), pp.e47304. ⟨10.1371/journal.pone.0047304⟩ Journal articles inserm-00926600v1
	Selective constraint on human pre-mRNA splicing by protein structural properties. Jean-Christophe Gelly , Hsuan-Yu Lin , Alexandre de Brevern , Trees-Juen Chuang , Feng-Chi Chen Genome Biology and Evolution, 2012, 4 (9), pp.966-75. ⟨10.1093/gbe/evs071⟩ Journal articles inserm-00750397v1
	PredyFlexy: flexibility and local structure prediction from sequence. Alexandre de Brevern , Aurélie Bornot , Pierrick Craveur , Catherine Etchebest , Jean-Christophe Gelly Nucleic Acids Research, 2012, 40 (Web Server issue), pp.W317-22. ⟨10.1093/nar/gks482⟩ Journal articles inserm-00750270v1
	Progressive structure-based alignment of homologous proteins: Adopting sequence comparison strategies. Agnel Praveen Joseph , Narayanaswamy Srinivasan , Alexandre de Brevern Biochimie, 2012, 94 (9), pp.2025-34. ⟨10.1016/j.biochi.2012.05.028⟩ Journal articles inserm-00750325v1
	Comparison of tertiary structures of proteins in protein-protein complexes with unbound forms suggests prevalence of allostery in signalling proteins. Lakshmipuram S. Swapna , Swapnil Mahajan , Alexandre de Brevern , Narayanaswamy Srinivasan BMC Structural Biology, 2012, 12 (1), pp.6. ⟨10.1186/1472-6807-12-6⟩ Journal articles inserm-00725334v1
	Cis-trans peptide variations in structurally similar proteins. Agnel Praveen Joseph , Narayanaswamy Srinivasan , Alexandre de Brevern Amino Acids, 2012, 43 (3), pp.1369-81. ⟨10.1007/s00726-011-1211-9⟩ Journal articles inserm-00680773v1
	Le cahier de laboratoire électronique (CLE) Anabelle Amiard , Céline Baczynski , Christophe Blanchet , Alexandre de Brevern , Emmanuelle Dorlanne-Messiaen STP Pharma Pratiques, 2011, 21 (6), pp.475-503 Journal articles inserm-00680791v1
	Predicting protein flexibility through the prediction of local structures. Aurélie Bornot , Catherine Etchebest , Alexandre de Brevern Proteins - Structure, Function and Bioinformatics, 2011, 79 (3), pp.839-52. ⟨10.1002/prot.22922⟩ Journal articles inserm-00568171v1
	Identification of local conformational similarity in structurally variable regions of homologous proteins using protein blocks. Garima Agarwal , Swapnil Mahajan , Narayanaswamy Srinivasan , Alexandre de Brevern PLoS ONE, 2011, 6 (3), pp.e17826. ⟨10.1371/journal.pone.0017826⟩ Journal articles inserm-00586691v1
	Improvement of protein structure comparison using a structural alphabet. Agnel Praveen Joseph , Narayanaswamy Srinivasan , Alexandre de Brevern Biochimie, 2011, 93 (9), pp.1434-45. ⟨10.1016/j.biochi.2011.04.010⟩ Journal articles inserm-00646245v1
	iPBA: a tool for protein structure comparison using sequence alignment strategies. Jean-Christophe Gelly , Agnel Praveen Joseph , Narayanaswamy Srinivasan , Alexandre de Brevern Nucleic Acids Research, 2011, 39 (Web Server issue), pp.W18-23. ⟨10.1093/nar/gkr333⟩ Journal articles inserm-00646241v1
	Protein Peeling 3D: new tools for analyzing protein structures. Jean-Christophe Gelly , Alexandre de Brevern Bioinformatics, 2011, 27 (1), pp.132-3. ⟨10.1093/bioinformatics/btq610⟩ Journal articles inserm-00568165v1
	Species specific amino acid sequence-protein local structure relationships: An analysis in the light of a structural alphabet. Alexandre de Brevern , Agnel Praveen Joseph Journal of Theoretical Biology, 2011, 276 (1), pp.209-17. ⟨10.1016/j.jtbi.2011.01.047⟩ Journal articles inserm-00646218v1
	Assignment of PolyProline II Conformation and Analysis of Sequence - Structure Relationship. Yohann Mansiaux , Agnel Praveen Joseph , Jean-Christophe Gelly , Alexandre de Brevern PLoS ONE, 2011, 6 (3), pp.e18401. ⟨10.1371/journal.pone.0018401⟩ Journal articles inserm-00586725v1
	Species specific amino acid sequence - Protein local structure relationships: An analysis in the light of a structural alphabet Alexandre de Brevern , Agnel Praveen Joseph , Hélène Valadié Journal of Theoretical Biology, 2011, 276 (1), pp.209. ⟨10.1016/j.jtbi.2011.01.047⟩ Journal articles hal-00682413v1
	Comparative analysis of threshold and tessellation methods for determining protein contacts. Jeremy Esque , Christophe Oguey , Alexandre de Brevern Journal of Chemical Information and Modeling, 2011, 51 (2), pp.493-507. ⟨10.1021/ci100195t⟩ Journal articles inserm-00568174v1
	Influence of assignment on the prediction of transmembrane helices in protein structures. Jean Pylouster , Aurélie Bornot , Catherine Etchebest , Alexandre de Brevern Amino Acids, 2010, 39 (5), pp.1241-54. ⟨10.1007/s00726-010-0559-6⟩ Journal articles inserm-00472869v1
	Observer avec un nouvel oeil la structure des protéines et leur flexibilité. Alexandre de Brevern Regard sur la biochimie, 2010, 2010 (4), pp.3 Journal articles inserm-00557286v1
	A recombinant dromedary antibody fragment (VHH or nanobody) directed against human Duffy antigen receptor for chemokines. Dorota Smolarek , Claude Hattab , Gholamreza Hassanzadeh-Ghassabeh , Sylvie Cochet , Carlos Gutiérrez Cellular and Molecular Life Sciences, 2010, 67 (19), pp.3371-87. ⟨10.1007/s00018-010-0387-6⟩ Journal articles inserm-00512838v1
	Comparative analysis of missing value imputation methods to improve clustering and interpretation of microarray experiments. Magalie Celton , Alain Malpertuy , Gaëlle Lelandais , Alexandre de Brevern BMC Genomics, 2010, 11 (1), pp.15. ⟨10.1186/1471-2164-11-15⟩ Journal articles inserm-00663912v1
	Fast and automated functional classification with MED-SuMo: an application on purine-binding proteins. Olivia Doppelt-Azeroual , François Delfaud , Fabrice Moriaud , Alexandre de Brevern Protein Science, 2010, 19 (4), pp.847-67. ⟨10.1002/pro.364⟩ Journal articles inserm-00458093v1
	Multiple interests in structural models of DARC transmembrane protein. Dorota Smolarek , Olivier Bertrand , Marcin Czerwinski , Yves Colin , Catherine Etchebest Transfusion Clinique et Biologique, 2010, 17 (3), pp.184-96. ⟨10.1016/j.tracli.2010.05.003⟩ Journal articles inserm-00506537v1
	A novel evaluation of residue and protein volumes by means of Laguerre tessellation. Jeremy Esque , Christophe Oguey , Alexandre de Brevern Journal of Chemical Information and Modeling, 2010, 50 (5), pp.947-60. ⟨10.1021/ci9004892⟩ Journal articles inserm-00473943v1
	A short survey on protein blocks. Agnel Joseph , Garima Agarwal , Swapnil Mahajan , Jean-Christophe Gelly , Lakshmipuram S. Swapna Biophysical Reviews, 2010, 2 (3), pp.137-147. ⟨10.1007/s12551-010-0036-1⟩ Journal articles inserm-00512823v1
	3D Structural Models of Transmembrane Proteins. Alexandre de Brevern Methods in Molecular Biology, 2010, 654, pp.387-401. ⟨10.1007/978-1-60761-762-4_20⟩ Journal articles inserm-00507094v1
	AlphaIIbbeta3 integrin: new allelic variants in Glanzmann thrombasthenia, effects on ITGA2B and ITGB3 mRNA splicing, expression, and structure-function. Vincent Jallu , Mathilde Dusseaux , Simon Panzer , Marie-Françoise Torchet , Nathalie Hezard Human Mutation, 2010, 31 (3), pp.237-46. ⟨10.1002/humu.21179⟩ Journal articles inserm-00448024v1
	A dominant mutation in the gene encoding the erythroid transcription factor KLF1 causes a congenital dyserythropoietic anemia. Lionel Arnaud , Carole Saison , Virginie Helias , Nicole Lucien , Dominique Steschenko American Journal of Human Genetics, 2010, 87 (5), pp.721-7. ⟨10.1016/j.ajhg.2010.10.010⟩ Journal articles inserm-00550723v1
	Analysis of protein chameleon sequence characteristics. Amine Ghozlane , Agnel Joseph , Aurélie Bornot , Alexandre de Brevern Bioinformation, 2009, 3 (9), pp.367-9 Journal articles inserm-00353122v1
	Editorial for Infectious Diseases - Drug Targets (in silico issue) Alexandre de Brevern Infectious disorders drug targets, 2009, 9 (3), pp.246-7 Journal articles inserm-00395256v1
	A new prediction strategy for long local protein structures using an original description. Aurélie Bornot , Catherine Etchebest , Alexandre de Brevern Proteins - Structure, Function and Bioinformatics, 2009, 76 (3), pp.570-87. ⟨10.1002/prot.22370⟩ Journal articles inserm-00348740v1
	Protein short loop prediction in terms of a structural alphabet. Manoj Tyagi , Aurélie Bornot , Bernard Offmann , Alexandre de Brevern Computational Biology and Chemistry, 2009, 33 (4), pp.329-33. ⟨10.1016/j.compbiolchem.2009.06.002⟩ Journal articles inserm-00396485v1
	In Silico Studies on DARC. Alexandre de Brevern , Ludovic Autin , Yves Colin , Olivier Bertrand , Catherine Etchebest Infectious disorders drug targets, 2009, 9 (3), pp.289-303 Journal articles inserm-00366309v1
	Computational fragment-based drug design to explore the hydrophobic sub-pocket of the mitotic kinesin Eg5 allosteric binding site. Ksenia Oguievetskaia , Laetitia Martin-Chanas , Artem Vorotyntsev , Olivia Doppelt-Azeroual , Xavier Brotel Journal of Computer-Aided Molecular Design, 2009, 23 (8), pp.571-82. ⟨10.1007/s10822-009-9286-z⟩ Journal articles inserm-00396557v1
	Analysis of HSP90-related folds with MED-SuMo classification approach. Olivia Doppelt-Azeroual , Fabrice Moriaud , François Delfaud , Alexandre de Brevern Drug Design, Development and Therapy, 2009, 3, pp.59-72 Journal articles inserm-00348737v1
	Analysis of protein contacts into Protein Units. Guilhem Faure , Aurélie Bornot , Alexandre de Brevern Biochimie, 2009, 91 (7), pp.876-87. ⟨10.1016/j.biochi.2009.04.008⟩ Journal articles inserm-00375095v1
	Analyzing the sequence-structure relationship of a library of local structural prototypes. Cristina Benros , Alexandre de Brevern , Serge A. Hazout Journal of Theoretical Biology, 2009, 256 (2), pp.215-26. ⟨10.1016/j.jtbi.2008.08.032⟩ Journal articles inserm-00318954v1
	Analysis of loop boundaries using different local structure assignment methods. Manoj Tyagi , Aurélie Bornot , Bernard Offmann , Alexandre de Brevern Protein Science, 2009, 18 (9), pp.1869-81. ⟨10.1002/pro.198⟩ Journal articles inserm-00392504v1
	Protein contacts, inter-residue interactions and side-chain modelling. Guilhem Faure , Aurélie Bornot , Alexandre de Brevern Biochimie, 2008, 90 (4), pp.626-39. ⟨10.1016/j.biochi.2007.11.007⟩ Journal articles inserm-00189828v1
	In silico local structure approach: A case study on Outer Membrane Proteins. Juliette Martin , Alexandre de Brevern , Anne-Claude Camproux Proteins - Structure, Function and Bioinformatics, 2008, 71 (1), pp.92-109. ⟨10.1002/prot.21659⟩ Journal articles inserm-00176452v1
	Local Protein Structures Bernard Offmann , Manoj Tyagi , Alexandre de Brevern Current Bioinformatics, 2007, 2, pp.165-202 Journal articles inserm-00175058v1
	A reduced amino acid alphabet for understanding and designing protein adaptation to mutation. Catherine Etchebest , Cristina Benros , Aurélie Bornot , Anne-Claude Camproux , Alexandre de Brevern European Biophysics Journal, 2007, 36 (8), pp.1059-69. ⟨10.1007/s00249-007-0188-5⟩ Journal articles inserm-00155390v1
	Protein structure mining using a structural alphabet. Manoj Tyagi , Alexandre de Brevern , Narayanaswamy Srinivasan , Bernard Offmann Proteins - Structure, Function and Bioinformatics, 2007, 71 (2), pp.920-937. ⟨10.1002/prot.21776⟩ Journal articles inserm-00176443v1
	How flexible protein structures are? New questions on the protein structure plasticity. Aurélie Bornot , Bernard Offmann , Alexandre de Brevern BioForum Europe, 2007, 11, pp.24 Journal articles inserm-00189079v1
	"Pinning strategy": a novel approach for predicting the backbone structure in terms of protein blocks from sequence. Alexandre de Brevern , Catherine Etchebest , Cristina Benros , Serge A. Hazout Journal of Biosciences, 2007, 32 (1), pp.51-70 Journal articles inserm-00143368v1
	Functional annotation strategy for protein structures Olivia Doppelt , Fabrice Moriaud , Aurélie Bornot , Alexandre de Brevern Bioinformation, 2007, 1 (9), pp.357-359 Journal articles inserm-00143366v1
	Protein beta-turn assignments. Aurélie Bornot , Alexandre de Brevern Bioinformation, 2006, 1 (5), pp.153-5 Journal articles inserm-00133658v1
	'Protein Peeling': an approach for splitting a 3D protein structure into compact fragments. Jean-Christophe Gelly , Alexandre de Brevern , Serge A. Hazout Bioinformatics, 2006, 22 (2), pp.129-33. ⟨10.1093/bioinformatics/bti773⟩ Journal articles inserm-00133725v1
	A substitution matrix for structural alphabet based on structural alignment of homologous proteins and its applications. Manoj Tyagi , Venkataraman S. Gowri , Narayanaswamy Srinivasan , Alexandre de Brevern , Bernard Offmann Proteins - Structure, Function and Bioinformatics, 2006, 65 (1), pp.32-9. ⟨10.1002/prot.21087⟩ Journal articles inserm-00133760v1
	Protein Peeling 2: a web server to convert protein structures into series of protein units. Jean-Christophe Gelly , Catherine Etchebest , Serge A. Hazout , Alexandre de Brevern Nucleic Acids Research, 2006, 34 (Web Server issue), pp.W75-8. ⟨10.1093/nar/gkl292⟩ Journal articles inserm-00133731v1
	Assessing a novel approach for predicting local 3D protein structures from sequence. Cristina Benros , Alexandre de Brevern , Catherine Etchebest , Serge A. Hazout Proteins - Structure, Function and Bioinformatics, 2006, 62 (4), pp.865-80. ⟨10.1002/prot.20815⟩ Journal articles inserm-00133180v1
	Protein Block Expert (PBE): a web-based protein structure analysis server using a structural alphabet. Manoj Tyagi , Priyanka Sharma , C. S. Swamy , Frédéric Cadet , N. Srinivasan Nucleic Acids Research, 2006, 34 (Web Server issue), pp.W119-23. ⟨10.1093/nar/gkl199⟩ Journal articles inserm-00133751v1
	A structural alphabet for local protein structures: improved prediction methods. Catherine Etchebest , Cristina Benros , Serge A. Hazout , Alexandre de Brevern Proteins - Structure, Function and Bioinformatics, 2005, 59 (4), pp.810-27. ⟨10.1002/prot.20458⟩ Journal articles inserm-00143564v1
	Protein secondary structure assignment revisited: a detailed analysis of different assignment methods. Juliette Martin , Guillaume Letellier , Antoine Marin , Jean-François Taly , Alexandre de Brevern BMC Structural Biology, 2005, 5 (17), pp.17. ⟨10.1186/1472-6807-5-17⟩ Journal articles inserm-00090199v1
	A structural model of a seven-transmembrane helix receptor: the Duffy antigen/receptor for chemokine (DARC). Alexandre de Brevern , H. Wong , Christophe Tournamille , Yves Colin , Caroline Le van Kim BBA - Biochimica et Biophysica Acta, 2005, 1724 (3), pp.288-306. ⟨10.1016/j.bbagen.2005.05.016⟩ Journal articles inserm-00143373v1
	New assessment of a structural alphabet. Alexandre de Brevern In Silico Biol, 2005, 5 (3), pp.283-9 Journal articles inserm-00132875v1
	Influence of microarrays experiments missing values on the stability of gene groups by hierarchical clustering. Alexandre de Brevern , Serge A. Hazout , Alain Malpertuy BMC Bioinformatics, 2004, 5, pp.114. ⟨10.1186/1471-2105-5-114⟩ Journal articles inserm-00000113v1
	Local backbone structure prediction of proteins. Alexandre de Brevern , Cristina Benros , Romain Gautier , Hélène Valadié , Serge A. Hazout In Silico Biology, 2004, 4 (3), pp.381-6 Journal articles inserm-00132872v1
	Use of a structural alphabet for analysis of short loops connecting repetitive structures. Laurent Fourrier , Cristina Benros , Alexandre de Brevern BMC Bioinformatics, 2004, 5, pp.58. ⟨10.1186/1471-2105-5-58⟩ Journal articles inserm-00112104v1
	'Hybrid protein model' for optimally defining 3D protein structure fragments. Alexandre de Brevern , Serge A. Hazout Bioinformatics, 2003, 19 (3), pp.345-53. ⟨10.1093/bioinformatics/btf859⟩ Journal articles inserm-00133632v1
	Genome compartimentation by a hybrid chromosome model (HXM). Application to Saccharomyces cerevisae subtelomeres Alexandre de Brevern , France Loirat , Anne Badel-Chagnon , Cécile André , Pierre Vincens Comput Chem, 2002, 26 (5), pp.437-45. ⟨10.1016/S0097-8485(02)00006-2⟩ Journal articles inserm-00143383v1
	Extension of a local backbone description using a structural alphabet: a new approach to the sequence-structure relationship. Alexandre de Brevern , Hélène Valadié , Serge A. Hazout , Catherine Etchebest Protein Science, 2002, 11 (12), pp.2871-86 Journal articles inserm-00143374v1
	Compartimentation chromosomique Alexandre de Brevern Biofutur, 2002, 225, pp.20-22 Journal articles inserm-00132826v1
	Exploring the use of a structural alphabet for a structural prediction of protein loops Anne-Claude Camproux , Alexandre de Brevern , Serge A. Hazout , Pierre Tufféry Theoretical Chemistry Accounts: Theory, Computation, and Modeling, 2001, 106 (1/2), pp.28-35. ⟨10.1007/s002140100261⟩ Journal articles inserm-00134555v1
	Compacting local protein folds with a Hybrid Protein Alexandre de Brevern , Serge A. Hazout Theoretical Chemistry Accounts: Theory, Computation, and Modeling, 2001, 106 (1/2), pp.36-47. ⟨10.1007/s002140000227⟩ Journal articles inserm-00132867v1
	Bayesian probabilistic approach for predicting backbone structures in terms of protein blocks. Alexandre de Brevern , Catherine Etchebest , Serge A. Hazout Proteins - Structure, Function and Bioinformatics, 2000, 41 (3), pp.271-87 Journal articles inserm-00132821v1

	Analysis of allosteric effect of pathologic variants at the light of local protein conformations Alexandre de Brevern Belgrade BioInformatics Conference – BelBi 2018, Jun 2018, Belgrade, Serbia Conference papers inserm-01853665v1
	Dynamics and deformability of α-, 310- and π-helices Nicolas Shinada , Tarun Jairaj Narwani , Pierrick Craveur , Hubert Santuz , Joseph Rebehmed 20e congrès du GGMM (groupe de graphisme et modélisation moléculaire), May 2017, Reims, France Conference papers inserm-01581259v1
	Protein structure analysis, prediction and flexibility in the light of a structural alphabet Alexandre de Brevern 1ère réunion du GT MASIM du GDR BIM, GDR BIM (CNRS), Nov 2017, Paris, France Conference papers inserm-01636581v1
	PB-PENTAdb : a web resource for the analysis and prediction of local backbone structure and flexibility using pentapeptide protein blocks Bernard Offmann , M. Tyagi , A. Joseph , M. Drula , M. Grondin 9th European Congress on Computation Biology (ECCB10), Sep 2010, Ghent, Belgium Conference papers hal-01198468v1
	Hybrid Protein Model (HPM) : A Method For Building A Library Of Overlapping Local Structural Prototypes. Sensitivity Study And Improvements Of The Training Cristina Benros , Alexandre de Brevern , Serge Hazout 2003, pp.53-72 Conference papers inserm-00133639v1
	"Hybrid Protein Model": a new clustering approach for 3D local structures Cristina Benros , Serge A. Hazout , Alexandre de Brevern 2002, pp.36-45 Conference papers inserm-00134559v1
	"Hybrid Protein Model (HPM)" : une nouvelle approche pour caractériser les relations séquence-structure dans les protéines Alexandre de Brevern , Serge A. Hazout 2000, pp.105-112 Conference papers inserm-00134567v1
	Hybrid Protein Model (HPM): a method to compact protein 3D-structures information and physicochemical properties. Alexandre de Brevern , Serge A. Hazout 2000, pp.49-54, ⟨10.1109/SPIRE.2000.878179⟩ Conference papers inserm-00132863v1

	Analyse par dynamiques moléculaires de 5 types de Calréticuline associée à la thrombocytémie essentielle Ragousandirane Radjasandirane , Alexandre de Brevern 43e congrès de la Société Française d'Hématologie, Mar 2024, Paris, France Conference poster inserm-04072440v1
	Evaluation of 50 Computational Tools for Predicting Pathogenicity of Genetic Variants: Unveiling representativeness issues on public datasets Ragousandirane Radjasandirane , Jean-Christophe Gelly , Julien Diharce , Alexandre de Brevern International Symposium on Human Genomics, Sep 2023, Paris, France Conference poster hal-04264309v1
	Analysis of VHH dynamics Akhila Melarkode Vattekatte , Julien Diharce , Catherine Etchebest , Alexandre de Brevern 67th Biophysical Society Annual Meeting, Feb 2023, San Diego (California), United States Conference poster inserm-04072706v1
	On the turning away Alexandre de Brevern 20e congrès du GGMM (groupe de graphisme et modélisation moléculaire), Aug 2017, Reims, France. 2017 Conference poster inserm-01575727v1
	On the turning away Alexandre de Brevern Joint 25th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) and 16th European Conference on Computational Biology (ECCB) 2017, Aug 2017, Prague, Czech Republic. , 2017 Conference poster inserm-01575565v1
	Comparative Analysis of Protein -Protein Interface Methods Alexandre de Brevern , Jérémy Esque Groupe Graphisme Modélisation Moléculaire (GGMM), May 2017, Reims, France Conference poster inserm-01586501v1

	Bioinformatique - 3e édition Gilbert Deléage , Manolo Gouy , Alexandre de Brevern Dunod, 2021, Collection Sciences Sup, 978-2-10-081515-9 Books hal-03356596v1

	Modélisation des systèmes biologiques, bioinformatique Olivier Gascuel , P. Benas , C. Brun , D. Burnouf , Alexandre de Brevern Rapport de conjoncture 2010 du Comité national de la recherche scientifique, CNRS Editions, chapitre 43, 845-858, 2011, 978-2-271-07263-4 Book sections hal-00799641v1
	A bioinformatic web server to cut protein structures in terms of Protein Units. Jean-Christophe Gelly , Alexandre de Brevern Jaclyn E. Morris. Computer Science Research and the Internet, Nova Book Press, pp.169-183, 2011 Book sections inserm-00646177v1
	Local Structure Alphabets Agnel Joseph , Aurélie Bornot , Alexandre de Brevern Huzefa Rangwala, George Karypis. Introduction to Protein Structure Prediction: Methods and Algorithms, Wiley, pp.75-106, 2010, ⟨10.1002/9780470882207.ch5⟩ Book sections inserm-00557300v1
	Characterization of Conformational Patterns in Active and Inactive Forms of Kinases Using Protein Blocks Approach. Garima Agarwal , Dhurvas Chandrasekaran Dinesh , Narayanaswamy Srinivasan , Alexandre de Brevern Ujjwal Maulik, Sanghamitra Bandyopadhyay, Jason T. L. Wang. Computational Intelligence and Pattern Analysis in Biological Informatics, Wiley, pp.169-188, 2010, ⟨10.1002/9780470872352.ch8⟩ Book sections inserm-00557296v1
	Turns prediction Patrick Fuchs , Catherine Etchebest , Alexandre de Brevern Alexandre G. de Brevern. Recent Advances in Structural Bioinformatics, Research Signpost, Trivandrum, Kerala, India., pp.43-63, 2007 Book sections inserm-00176710v1
	Description of the local protein structure. I. Classical approaches. Cristina Benros , Juliette Martin , Manoj Tyagi , Alexandre de Brevern Alexandre G. de Brevern. Recent Advances in Structural Bioinformatics, Research Signpost, Trivandrum, Kerala, India., pp.6-27, 2007 Book sections inserm-00176471v1
	Description of the local protein structure. II. Novel approaches. Manoj Tyagi , Cristina Benros , Juliette Martin , Alexandre de Brevern Alexandre G. de Brevern. Recent Advances in Structural Bioinformatics, Research Signpost, Trivandrum, Kerala, India., pp.28-42, 2007 Book sections inserm-00176668v1
	Structural Alphabet: From a Local Point of View to a Global Description of Protein 3D Structures Alexandre de Brevern , Cristina Benros , Serge A. Hazout Yan, Peter V. Bioinformatics: New Research, Nova publishers, pp.127-69, 2005 Book sections inserm-00134564v1
	Protein structural alphabets: beyond the secondary structure description Alexandre de Brevern , Anne-Claude Camproux , Serge A. Hazout , Catherine Etchebest , Pierre Tufféry Sangadai SG. Recent research developments in protein engineering, Research signpost, pp.319-331, 2001 Book sections inserm-00133650v1

	PEPOP: new approaches to mimic non-continous epitopes Vincent Demolombe , Alexandre de Brevern , Liza Felicori , Christophe Nguyen , Ricardo Andrez Machado de Avila 2018 Preprints, Working Papers, ... hal-02787634v1

	Nouvelles stratégies d'analyses et de prédiction des structures tridimensionnelles des protéines Alexandre de Brevern Biochimie [q-bio.BM]. Université Paris-Diderot - Paris VII, 2001. Français. ⟨NNT : ⟩ Theses tel-00133819v1

Alexandre G. de Brevern

Publications

HumanLectome, an update of UniLectin for the annotation and prediction of human lectins

Molecular dynamics of the human RhD and RhAG blood group proteins

General Trends of the Camelidae Antibody VHHs Domain Dynamics

BioMedInformatics, the Link between Biomedical Informatics, Biology and Computational Medicine

AlphaFold2 Update and Perspectives

A perspective on the sharing of docking data

Structural Space of the Duffy Antigen/Receptor for Chemokines’ Intrinsically Disordered Ectodomain 1 Explored by Temperature Replica-Exchange Molecular Dynamics Simulations

Prediction of structural alphabet protein blocks using data mining

VHH Structural Modelling Approaches: A Critical Review

Current status of PTMs structural databases: applications, limitations and prospects

CALR-ETdb, the database of calreticulin variants diversity in essential thrombocythemia

New αIIbβ3 variants in 28 Turkish Glanzmann patients; structural hypothesis for complex activation by residues variations in I-EGF domains

SWORD2: hierarchical analysis of protein 3D structures

Analysis of Integrin αIIb Subunit Dynamics Reveals Long-Range Effects of Missense Mutations on Calf Domains

Transient association between proteins elicits alteration of dynamics at sites far away from interfaces

PYTHIA: Deep Learning Approach for Local Protein Conformation Prediction

Hierarchical Structure of Protein Sequence

Conformational Strain Indicated by Ramachandran Angles for the Protein Backbone Is Only Weakly Related to the Flexibility

ABCG2 Is Overexpressed on Red Blood Cells in Ph-Negative Myeloproliferative Neoplasms and Potentiates Ruxolitinib-Induced Apoptosis

Structural and evolutionary exploration of the IL-3 family and its alpha subunit receptors

Insights into Comparative Modeling of VHH Domains

Insights into anti‐D formation in carriers of RhD variants through studies of 3D intraprotein interactions

A Review of the Literature Organized Into a New Database: RHeference

A structural entropy index to analyse local conformations in intrinsically disordered proteins

Investigating the Product Profiles and Structural Relationships of New Levansucrases with Conventional and Non-Conventional Substrates

Analysis of Protein Disorder Predictions in the Light of a Protein Structural Alphabet

Data set of intrinsically disordered proteins analysed at a local protein conformation level

Accurate Representation of Protein-Ligand Structural Diversity in the Protein Data Bank (PDB)

Discrete analysis of camelid variable domains: sequences, structures, and in-silico structure prediction

Investigation of the impact of PTMs on the protein backbone conformation

PEPOP 2.0: new approaches to mimic non-continuous epitopes

Benchmarking the PEPOP methods for mimicking discontinuous epitopes

Structural variations within proteins can be as large as variations observed across their homologues

In silico prediction of protein flexibility with local structure approach

Halogens in Protein−Ligand Binding Mechanism: A Structural Perspective

Short in-Frame Insertions/Deletions in the Coding Sequence of the α-Globin Gene. Consequences of the 3D Structure and Resulting Phenotypes: Hb Choisy as an Example

Prediction of the intestinal resistome by a three-dimensional structure-based method

Dimerization and phosphorylation of Lutheran/basal cell adhesion molecule are critical for its function in cell migration on laminin

Discrete analyses of protein dynamics

Long-range molecular dynamics show that inactive forms of Protein Kinase A are more dynamic than active forms

iPBAvizu: a PyMOL plugin for an efficient 3D protein structure superimposition approach

A minimum set of stable blocks for rational design of polypeptide chains Running head: A set of stable blocks for protein rational design

Analysing the Structural Effect of Point Mutations of Cytotoxic Necrotizing Factor 1 (CNF1) on Lu/BCAM Adhesion Glycoprotein Association

Protein local conformations at the light of a structural alphabet

Same but not alike: Structure, flexibility and energetics of domains in multi-domain proteins are influenced by the presence of other domains

Dynamics and deformability of α-, 310- and π-helices

Molecular characterization of 13 new RHD alleles

Recent advances on polyproline II.

Knowledge-based prediction of protein backbone conformation using a structural alphabet

Global analysis of VHHs framework regions with a structural alphabet

Extension of the classical classification of β-turns

Use of a structural alphabet to find compatible folds for amino acid sequences

mulPBA: an efficient multiple protein structure alignment method based on a structural alphabet.

Correlation between local structural dynamics of proteins inferred from NMR ensembles and evolutionary dynamics of homologues of known structure.

Bioinformatic analysis of the protein/DNA interface.

β-Bulges: extensive structural analyses of β-sheets irregularities.

PRR repeats in the intracellular domain of KISS1R are important for its export to cell membrane.

Cis-trans isomerization of omega dihedrals in proteins.

VLDP web server: a powerful geometric tool for analysing protein structures in their environment.

Understanding the role of domain-domain linkers in the spatial orientation of domains in multi-domain proteins.

DoSA: Database of Structural Alignments.

Evolution study of the Baeyer-Villiger monooxygenases enzyme family: functional importance of the highly conserved residues.

Local structural differences in homologous proteins: specificities in different SCOP classes.

Modeling and molecular dynamics of HPA-1a and -1b polymorphisms: effects on the structure of the β3 subunit of the αIIbβ3 integrin.

Selective constraint on human pre-mRNA splicing by protein structural properties.

PredyFlexy: flexibility and local structure prediction from sequence.

Progressive structure-based alignment of homologous proteins: Adopting sequence comparison strategies.

Comparison of tertiary structures of proteins in protein-protein complexes with unbound forms suggests prevalence of allostery in signalling proteins.

Cis-trans peptide variations in structurally similar proteins.

Le cahier de laboratoire électronique (CLE)

Predicting protein flexibility through the prediction of local structures.

Identification of local conformational similarity in structurally variable regions of homologous proteins using protein blocks.

Improvement of protein structure comparison using a structural alphabet.

iPBA: a tool for protein structure comparison using sequence alignment strategies.

Protein Peeling 3D: new tools for analyzing protein structures.

Species specific amino acid sequence-protein local structure relationships: An analysis in the light of a structural alphabet.

Assignment of PolyProline II Conformation and Analysis of Sequence - Structure Relationship.

Species specific amino acid sequence - Protein local structure relationships: An analysis in the light of a structural alphabet