STCRDab: the structural T-cell receptor database.

Jinwoo Leem,Konrad Krawczyk,Charlotte M Deane,Saulo H P De Oliveira

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.

Highlights

T-cell receptors (TCRs) are proteins of the adaptive immune response
We have developed the Structural TCR Database (STCRDab), building on our Structural Antibody Database (SAbDab; 19)
Users can browse and select both ␣␤ and ␥ ␦ TCRs based on a wide range of criteria, such as the sequence of the TCR’s complementarity-determining region (CDR) loops, the resolution of the structure, and the type of major histocompatibility complex (MHC) molecule bound by the TCR

Summary

Introduction

T-cell receptors (TCRs) are proteins of the adaptive immune response. They are expressed on the surfaces of T-cells and typically recognise peptides that are presented by major histocompatibility complex (MHC) molecules. ATLAS is a manually curated database, containing a large volume of affinity data; users can view and download one of 87 experimental structures, and retrieve summaries of individual queries. Users can browse and select both ␣␤ and ␥ ␦ TCRs based on a wide range of criteria, such as the sequence of the TCR’s complementarity-determining region (CDR) loops, the resolution of the structure, and the type of MHC molecule bound by the TCR.

Results

Conclusion