Journal ArticleDOI
IMGT unique numbering for immunoglobulin and T cell receptor variable domains and Ig superfamily V-like domains.
Marie-Paule Lefranc,Christelle Pommié,Quentin Kaas,Elodie Duprat,Nathalie Bosc,Delphine Guiraudou,Christelle Jean,Manuel Ruiz,Isabelle Da Piédade,Mathieu Rouard,Elodie Foulquier,Valérie Thouvenin,Gérard Lefranc +12 more
TLDR
The IMGT unique numbering is, therefore, highly valuable for the comparative, structural or evolutionary studies of the immunoglobulin superfamily (IgSF) domains, V-DOMAINs and C- DOMAINs of IG and TR in vertebrates, and V-LIKE-DOMains andC-LIke-DOMains of proteins other than IG andTR, in any species.Abstract:
IMGT, the international ImMunoGeneTics database (http://imgt.cines.fr) is a high quality integrated information system specializing in immunoglobulins (IG), T cell receptors (TR) and major histocompatibility complex (MHC) of human and other vertebrates. IMGT provides a common access to expertly annotated data on the genome, proteome, genetics and structure of the IG and TR, based on the IMGT Scientific chart and IMGT-ONTOLOGY. The IMGT unique numbering defined for the IG and TR variable regions and domains of all jawed vertebrates has allowed a redefinition of the limits of the framework (FR-IMGT) and complementarity determining regions (CDR-IMGT), leading, for the first time, to a standardized description of mutations, allelic polymorphisms, 2D representations (Colliers de Perles) and 3D structures, whatever the antigen receptor, the chain type, or the species. The IMGT numbering has been extended to the V-like domain and is, therefore, highly valuable for comparative analysis and evolution studies of proteins belonging to the IG superfamily.read more
Citations
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IMGT®, the international ImMunoGeneTics information system®
Marie-Paule Lefranc,Véronique Giudicelli,Chantal Ginestoux,Joumana Jabado-Michaloud,Géraldine Folch,Fatena Bellahcene,Yan-Yan Wu,Elodie Gemrot,Xavier Brochet,Jérôme Lane,Laetitia Regnier,François Ehrenmann,Gérard Lefranc,Patrice Duroux +13 more
TL;DR: IMGT, the international ImMunoGeneTics information system, was created in 1989 by Marie-Paule Lefranc, Laboratoire d'ImmunoGénétique Moléculaire LIGM at Montpellier, France, in order to standardize and manage the complexity of immunogenetics data.
Journal ArticleDOI
IMGT/V-QUEST: the highly customized and integrated system for IG and TR standardized V-J and V-D-J sequence analysis
TL;DR: IMGT/V-QUEST is the highly customized and integrated system for the standardized analysis of the immunoglobulin (IG) and T cell receptor (TR) rearranged nucleotide sequences.
Journal ArticleDOI
Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies.
Nicole A. Doria-Rose,Chaim A. Schramm,Jason Gorman,Penny L. Moore,Jinal N. Bhiman,Brandon J. DeKosky,Michael J. Ernandes,Ivelin S. Georgiev,Helen J. Kim,Marie Pancera,Ryan P. Staupe,Han Altae-Tran,Robert T. Bailer,Ema T. Crooks,Albert Cupo,Aliaksandr Druz,Nigel Garrett,Kam Hon Hoi,Rui Kong,Mark K. Louder,Nancy S. Longo,Krisha McKee,Molati Nonyane,Sijy O'Dell,Ryan S. Roark,Rebecca S. Rudicell,Stephen D. Schmidt,Daniel J. Sheward,Cinque Soto,Constantinos Kurt Wibmer,Yongping Yang,Zhenhai Zhang,Nisc Comparative Sequencing,James C. Mullikin,James M. Binley,Rogier W. Sanders,Ian A. Wilson,John P. Moore,Andrew B. Ward,George Georgiou,Carolyn Williamson,Salim S. Abdool Karim,Lynn Morris,Peter D. Kwong,Lawrence Shapiro,John R. Mascola +45 more
TL;DR: HIV-1 V1V2-directed neutralizing antibodies can develop relatively rapidly through initial selection of B cells with a long CDR H3, and limited subsequent somatic hypermutation, and provide important insights relevant to HIV-1 vaccine development.
Journal ArticleDOI
IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes
TL;DR: IMGT/GENE-DB is the comprehensive IMGT genome database for immunoglobulin (IG) and T cell receptor (TR) genes from human and mouse, and, in development, from other vertebrates.
Journal ArticleDOI
Immunization with vaccinia virus induces polyfunctional and phenotypically distinctive CD8+ T cell responses
Melissa L. Precopio,Michael R. Betts,Janie Parrino,David Price,Emma Gostick,David R. Ambrozak,Tedi E. Asher,Daniel C. Douek,Alexandre Harari,Giuseppe Pantaleo,Robert T. Bailer,Barney S. Graham,Mario Roederer,Richard A. Koup +13 more
TL;DR: The unique phenotype and high degree of polyfunctionality induced by vaccinia virus also extended to inserted HIV gene products of recombinant NYVAC, suggesting that this quality of the CD8+ T cell response may be at least partially responsible for the profound efficacy of these vaccines in protection against smallpox.
References
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Journal ArticleDOI
The Protein Data Bank
Helen M. Berman,John D. Westbrook,Zukang Feng,Gary L. Gilliland,Talapady N. Bhat,Helge Weissig,Ilya N. Shindyalov,Philip E. Bourne +7 more
TL;DR: The goals of the PDB are described, the systems in place for data deposition and access, how to obtain further information and plans for the future development of the resource are described.
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Canonical structures for the hypervariable regions of immunoglobulins
TL;DR: The relatively few residues that, through their packing, hydrogen bonding or the ability to assume unusual phi, psi or omega conformations, are primarily responsible for the main-chain conformations of the hypervariable regions are identified.
Journal ArticleDOI
The Immunoglobulin Superfamily—Domains for Cell Surface Recognition
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TL;DR: The domain hypothesis was firmly established when the structures of V and C domains were determined to reveal a common fold forming a sandwich of two p-sheets that was stabilized by the conserved disulfide bond.
Journal ArticleDOI
Conformations of immunoglobulin hypervariable regions.
Cyrus Chothia,Cyrus Chothia,Arthur M. Lesk,Anna Tramontano,Michael Levitt,Michael Levitt,Sandra J. Smith-Gill,Gillian M. Air,Steven Sheriff,Steven Sheriff,Eduardo A. Padlan,David R. Davies,W.R. Tulip,Peter M. Colman,Silvia Spinelli,Pedro M. Alzari,Roberto J. Poljak +16 more
TL;DR: There is a small repertoire of main-chain conformations for at least five of the six hypervariable regions of antibodies, and that the particular conformation adopted is determined by a few key conserved residues.