SMTL ID : 8xub.3 (3 other biounits)

Crystal structure of Y-50 TCR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 6 residues within 4Å: Chain A: E.56, Q.57, N.58, N.67, F.68, Q.69 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.58, A:F.68 NAG.2: 2 residues within 4Å: Chain A: F.12, N.148 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.148 NAG.4: 6 residues within 4Å: Chain B: L.54, N.57, S.59, V.60, S.62, P.66 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.57, B:V.60, B:S.62

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 7 residues within 4Å: Chain A: R.96, T.98, G.99, R.100, R.101, A.102 Chain B: I.56 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.100, A:R.101, A:A.102 Salt bridges: A:R.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sakai, Y. et al., A conserved human CD4+ T cell subset recognizing the mycobacterial adjuvant, trehalose monomycolate. J.Clin.Invest. (2024)

Release Date

2025-01-01

Peptides

Y-50 alpha: A
Y-50 beta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Y-50 alpha

Y-50 beta

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