Literature DB >> 29087479

STCRDab: the structural T-cell receptor database.

Jinwoo Leem1, Saulo H P de Oliveira1, Konrad Krawczyk1, Charlotte M Deane1.   

Abstract

The Structural T-cell Receptor Database (STCRDab; http://opig.stats.ox.ac.uk/webapps/stcrdab) is an online resource that automatically collects and curates TCR structural data from the Protein Data Bank. For each entry, the database provides annotations, such as the α/β or γ/δ chain pairings, major histocompatibility complex details, and where available, antigen binding affinities. In addition, the orientation between the variable domains and the canonical forms of the complementarity-determining region loops are also provided. Users can select, view, and download individual or bulk sets of structures based on these criteria. Where available, STCRDab also finds antibody structures that are similar to TCRs, helping users explore the relationship between TCRs and antibodies.
© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2018        PMID: 29087479      PMCID: PMC5753249          DOI: 10.1093/nar/gkx971

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  30 in total

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Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

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Review 2.  Structural Prediction of Peptide-MHC Binding Modes.

Authors:  Marta A S Perez; Michel A Cuendet; Ute F Röhrig; Olivier Michielin; Vincent Zoete
Journal:  Methods Mol Biol       Date:  2022

Review 3.  An overview of immunoinformatics approaches and databases linking T cell receptor repertoires to their antigen specificity.

Authors:  Ivan V Zvyagin; Vasily O Tsvetkov; Dmitry M Chudakov; Mikhail Shugay
Journal:  Immunogenetics       Date:  2019-11-18       Impact factor: 2.846

4.  TCRdb: a comprehensive database for T-cell receptor sequences with powerful search function.

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Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

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Journal:  Nucleic Acids Res       Date:  2022-07-08       Impact factor: 19.160

6.  The 2018 Nucleic Acids Research database issue and the online molecular biology database collection.

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7.  Epitope Specific Antibodies and T Cell Receptors in the Immune Epitope Database.

Authors:  Swapnil Mahajan; Randi Vita; Deborah Shackelford; Jerome Lane; Veronique Schulten; Laura Zarebski; Martin Closter Jespersen; Paolo Marcatili; Morten Nielsen; Alessandro Sette; Bjoern Peters
Journal:  Front Immunol       Date:  2018-11-20       Impact factor: 7.561

8.  Benchmark datasets of immune receptor-epitope structural complexes.

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9.  Information-Driven Docking for TCR-pMHC Complex Prediction.

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Journal:  Front Immunol       Date:  2021-06-09       Impact factor: 7.561

10.  MHC binding affects the dynamics of different T-cell receptors in different ways.

Authors:  Bernhard Knapp; P Anton van der Merwe; Omer Dushek; Charlotte M Deane
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