› 7su9

X-ray diffraction
1.99Å resolution

KRAS-G12D specific TCR9a in complex with C*05-GADGVGKSL

Released:
DOI: 10.2210/pdb7su9/pdb
PDB entry 7su9 coloured by chain, front view.
PDB entry 7su9 coloured by chain, side view.
PDB entry 7su9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
T cells discriminate between groups C1 and C2 HLA-C.
Sim MJW, Stotz Z, Lu J, Brennan P, Long EO, Sun PD
Elife 11 (2022)
PMID: 35587797

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-207548 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
TCR9a alpha chain Chain: D
Molecule details ›
Chain: D
Length: 206 amino acids
Theoretical weight: 22.65 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
TCR9a beta chain Chain: E
Molecule details ›
Chain: E
Length: 244 amino acids
Theoretical weight: 27.49 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 280 amino acids
Theoretical weight: 32.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A2BF26 (Residues: 25-304; Coverage: 75%)
Gene name: HLA-C
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(DE3)
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
KRAS-G12D-9mer with A18L substitution Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 804 Da
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand GOL 2 x GOL
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21
Unit cell:
a: 72.716Å b: 74.177Å c: 107.389Å
α: 90° β: 101.3° γ: 90°
R-values:
R R work R free
0.183 0.181 0.214
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 review citations

Structural basis for T cell recognition of cancer neoantigens and implications for predicting neoepitope immunogenicity.
Mariuzza et al. (2023)
1 more

2 mentions without citation

ImmuneBuilder: Deep-Learning models for predicting the structures of immune proteins.
Abanades et al. (2023)
1 more