8Y6X image
Entry Detail
PDB ID:
8Y6X
Keywords:
Title:
Crystal structure of ternary complex of human MR1, ligand #4, and MAIT-TCR A-F7
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2024-02-03
Release Date:
2024-10-30
Method Details:
Experimental Method:
Resolution:
3.40 Å
R-Value Free:
0.20
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 43
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Major histocompatibility complex class I-related gene protein
Mutations:C261S
Chain IDs:A
Chain Length:271
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Beta-2-microglobulin
Chain IDs:B
Chain Length:100
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:MAIT T cell receptor (A-F7) alpha chain
Chain IDs:C (auth: D)
Chain Length:203
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:MAIT T cell receptor (A-F7) beta chain
Chain IDs:D (auth: E)
Chain Length:245
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Development of Ribityllumazine Analogue as Mucosal-Associated Invariant T Cell Ligands.
J.Am.Chem.Soc. 146 29964 29976 (2024)
PMID: 39432319 DOI: 10.1021/jacs.4c12997

Abstact

Mucosal-associated invariant T (MAIT) cells are a subset of innate-like T cells abundant in human tissues that play a significant role in defense against bacterial and viral infections and in tissue repair. MAIT cells are activated by recognizing microbial-derived small-molecule ligands presented by the MHC class I related-1 protein. Although several MAIT cell modulators have been identified in the past decade, potent and chemically stable ligands remain limited. Herein, we carried out a structure-activity relationship study of ribityllumazine derivatives and found a chemically stable MAIT cell ligand with a pteridine core and a 2-oxopropyl group as the Lys-reactive group. The ligand showed high potency in a cocultivation assay using model cell lines of antigen-presenting cells and MAIT cells. The X-ray crystallographic analysis revealed the binding mode of the ligand to MR1 and the T cell receptor, indicating that it forms a covalent bond with MR1 via Schiff base formation. Furthermore, we found that the ligand stimulated proliferation of human MAIT cells in human peripheral blood mononuclear cells and showed an adjuvant effect in mice. Our developed ligand is one of the most potent among chemically stable MAIT cell ligands, contributing to accelerating therapeutic applications of MAIT cells.

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Primary Citation of related structures