› 8vcx

X-ray diffraction
2.59Å resolution

Human TCR A2.13 in complex with DQ8-InsCpep

Released:
DOI: 10.2210/pdb8vcx/pdb
PDB entry 8vcx coloured by chain, front view.
PDB entry 8vcx coloured by chain, side view.
PDB entry 8vcx coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A structural basis of T cell cross-reactivity to native and spliced self-antigens presented by HLA-DQ8.
Tran MT, Lim JJ, Loh TJ, Mannering SI, Rossjohn J, Reid HH
J Biol Chem 107612 (2024)
PMID: 39074636

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-279339 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (7 distinct):
T-CELL-RECEPTOR, TCR A2.13 alpha Chain: D
Molecule details ›
Chain: D
Length: 203 amino acids
Theoretical weight: 22.63 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
T-CELL-RECEPTOR, A2.13-beta chain Chain: E
Molecule details ›
Chain: E
Length: 239 amino acids
Theoretical weight: 27.08 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 185 amino acids
Theoretical weight: 21.15 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q30069 (Residues: 1-185; Coverage: 82%)
Gene name: HLA-DQA1
Sequence domains:
Ig-like domain-containing protein Chain: B
Molecule details ›
Chain: B
Length: 192 amino acids
Theoretical weight: 22.61 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O19707 (Residues: 1-192; Coverage: 84%)
Gene name: HLA-DQB1
Sequence domains:
Insulin Chain: C
Molecule details ›
Chain: C
Length: 15 amino acids
Theoretical weight: 1.39 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P01308 (Residues: 64-78; Coverage: 17%)
Gene name: INS

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand PO4 1 x PO4
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P212121
Unit cell:
a: 64.651Å b: 64.818Å c: 255.896Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.203 0.238
Expression systems:
  • Escherichia coli BL21(DE3)
  • Trichoplusia ni

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