STCRDab: the structural T-cell receptor database

• Published in: Nucleic acids research 2018-01, Vol.46 (D1), p.D406-D412
• Main Authors: Leem, Jinwoo, de Oliveira, Saulo H P, Krawczyk, Konrad, Deane, Charlotte M
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Antigens - chemistry; Antigens - immunology; Antigens - metabolism; Binding Sites; Complementarity Determining Regions - chemistry; Complementarity Determining Regions - metabolism; Database Issue; Databases, Protein; Humans; Internet; Major Histocompatibility Complex - genetics; Major Histocompatibility Complex - immunology; Models, Molecular; Molecular Sequence Annotation; Protein Binding; Protein Conformation, alpha-Helical; Protein Conformation, beta-Strand; Protein Interaction Domains and Motifs; Receptors, Antigen, T-Cell - chemistry; Receptors, Antigen, T-Cell - immunology; Receptors, Antigen, T-Cell - metabolism; Sequence Alignment; Sequence Homology, Amino Acid; Software; T-Lymphocytes - cytology; T-Lymphocytes - immunology
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gkx971

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.