› 7rtr

X-ray diffraction
2.6Å resolution

YLQ-SG3 TCR in complex with SARS-CoV-2 Spike-derived peptide S269-277 (YLQPRTFLL) presented by HLA-A*02:01

Released:
DOI: 10.2210/pdb7rtr/pdb
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PDB entry 7rtr coloured by chain, front view.
PDB entry 7rtr coloured by chain, side view.
PDB entry 7rtr coloured by chain, top view.
Source organisms:
Primary publication:
Molecular Basis of a Dominant SARS-CoV-2 Spike-Derived Epitope Presented by HLA-A*02:01 Recognised by a Public TCR.
Szeto C, Nguyen AT, Lobos CA, Chatzileontiadou DSM, Jayasinghe D, Grant EJ, Riboldi-Tunnicliffe A, Smith C, Gras S
OpenAccess logo Cells 10 (2021)
PMID: 34685626

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-279630 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 365 amino acids
Theoretical weight: 40.97 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q53Z42 (Residues: 1-365; Coverage: 100%)
Gene name: HLA-A
Sequence domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Spike protein S1 Chain: C
YLQ-SG3 TCR alpha chain (TRAV12-2) Chain: D
YLQ-SG3 TCR beta chain (TRBV7-9) Chain: E

Ligands and Environments

1 bound ligand:
Ligand NA 4 x NA
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: C2
Unit cell:
a: 225.356Å b: 49.622Å c: 91.725Å
α: 90° β: 91.83° γ: 90°
R-values:
R R work R free
0.193 0.191 0.235
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

Quick links

Citations

9 citation in other articles

Structural insights into protection against a SARS-CoV-2 spike variant by T cell receptor diversity.
Wu et al. (2023)
8 more

4 mentions without citation

Seeing the T cell Immunity of SARS-CoV-2 and SARS-CoV: Believing the Epitope-Oriented Vaccines.
Yue et al. (2023)
3 more

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