7F5K | pdb_00007f5k

Crystal structure of TCR4-1 ectodomain

PDB DOI: https://doi.org/10.2210/pdb7F5K/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-06-22 Released: 2022-06-22
Deposition Author(s): Nagae, M., Yamasaki, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.311 (Depositor), 0.309 (DCC)
R-Value Work:
0.225 (Depositor), 0.227 (DCC)
R-Value Observed:
0.229 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Symbiotic bacteria-dependent expansion of MR1-reactive T cells causes autoimmunity in the absence of Bcl11b.

Shibata, K., Motozono, C., Nagae, M., Shimizu, T., Ishikawa, E., Motooka, D., Okuzaki, D., Izumi, Y., Takahashi, M., Fujimori, N., Wing, J.B., Hayano, T., Asai, Y., Bamba, T., Ogawa, Y., Furutani-Seiki, M., Shirai, M., Yamasaki, S.

(2022) Nat Commun 13: 6948-6948

PubMed: 36376329 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41467-022-34802-8
Primary Citation Related Structures:
7F5K

PubMed Abstract:
MHC class I-related protein 1 (MR1) is a metabolite-presenting molecule that restricts MR1-reactive T cells including mucosal-associated invariant T (MAIT) cells. In contrast to MAIT cells, the function of other MR1-restricted T cell subsets is largely unknown. Here, we report that mice in which a T cell-specific transcription factor, B-cell lymphoma/leukemia 11B (Bcl11b), was ablated in immature thymocytes (Bcl11b ^∆iThy mice) develop chronic inflammation. Bcl11b ^∆iThy mice lack conventional T cells and MAIT cells, whereas CD4 ⁺IL-18R ⁺ αβ T cells expressing skewed Traj33 (Jα33) ⁺ T cell receptors (TCR) accumulate in the periphery, which are necessary and sufficient for the pathogenesis. The disorders observed in Bcl11b ^∆iThy mice are ameliorated by MR1-deficiency, transfer of conventional T cells, or germ-free conditions. We further show the crystal structure of the TCR expressed by Traj33 ⁺ T cells expanded in Bcl11b ^∆iThy mice. Overall, we establish that MR1-reactive T cells have pathogenic potential.

Organizational Affiliation

Department of Microbiology and Immunology, Graduate School of Medicine, Yamaguchi University, Ube, 755-8505, Japan.

Department of Ophthalmology, Department of Ocular Pathology and Imaging Science, Graduate School of Medical Sciences, Kyushu University, Fukuoka, 812-8582, Japan.

Department of Molecular Immunology, Research Institute for Microbial Diseases, Osaka University, Suita, 565-0871, Japan.

Division of Infection and Immunity, Joint Research Center for Human Retrovirus Infection, Kumamoto University, Kumamoto, 860-0871, Japan.

Laboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, 565-0871, Japan.

Department of Infection Metagenomics, Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Suita, 565-0871, Japan.

Single Cell Genomics, Human Immunology, World Premier International Research Center Initiative Immunology Frontier Research Center, Osaka University, Suita, 565-0871, Japan.

Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Suita, 565-0871, Japan.

Division of Metabolomics, Medical Institute of Bioregulation, Kyushu University, Fukuoka, 812-8582, Japan.

Department of Medicine and Bioregulatory Science, Graduate School of Medical Sciences, Kyushu University, Fukuoka, 812-8582, Japan.

Laboratory of Human Immunology (Single Cell Immunology), World Premier International Immunology Frontier Research Center, Osaka University, Suita, 565-0871, Japan.

Laboratory of Experimental Immunology, World Premier International Immunology Frontier Research Center, Osaka University, Suita, 565-0871, Japan.

Department of Systems Bioinformatics, Graduate School of Medicine, Yamaguchi University, Ube, 755-8505, Japan.

Japan Agency for Medical Research and Development, Core Research for Evolutional Science and Technology, Tokyo, 100-0004, Japan.

Department of Molecular Medicine and Metabolism, Research Institute of Environmental Medicine, Nagoya University, Nagoya, 464-8601, Japan.

Systems Biochemistry in Pathology and Regeneration, Graduate School of Medicine, Yamaguchi University, Ube, 755-8505, Japan.

Department of Molecular Immunology, Research Institute for Microbial Diseases, Osaka University, Suita, 565-0871, Japan. yamasaki@biken.osaka-u.ac.jp.

Laboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, 565-0871, Japan. yamasaki@biken.osaka-u.ac.jp.

Division of Molecular Design, Medical Institute of Bioregulation, Kyushu University, Fukuoka, 812-8582, Japan. yamasaki@biken.osaka-u.ac.jp.

Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, Chiba, 260-8673, Japan. yamasaki@biken.osaka-u.ac.jp.