› 7pb2

X-ray diffraction
3.41Å resolution

Crystal structure of JDI TCR in complex with HLA-A*11:01 bound to KRAS G12D peptide (VVVGADGVGK)

Released:
DOI: 10.2210/pdb7pb2/pdb
PDB entry 7pb2 coloured by chain, front view.
PDB entry 7pb2 coloured by chain, side view.
PDB entry 7pb2 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Therapeutic high affinity T cell receptor targeting a KRASG12D cancer neoantigen
Poole A, Karuppiah V, Hartt A, Haidar JN, Moureau S, Dobrzycki T, Hayes C, Rowley C, Dias J, Harper S, Barnbrook K, Hock M, Coles C, Yang W, Aleksic M, Lin AB, Robinson R, Dukes JD, Liddy N, Van der Kamp M, Plowman GD, Vuidepot A, Cole DK, Whale AD, Chillakuri C
Nat Commun 13 5333- (2022)

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-224661 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Ig-like domain-containing protein Chains: A, F
Molecule details ›
Chains: A, F
Length: 276 amino acids
Theoretical weight: 31.95 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A583ZB34 (Residues: 25-299; Coverage: 79%)
Gene name: HLA-A
Sequence domains:
Beta-2-microglobulin Chains: B, G
Molecule details ›
Chains: B, G
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
GTPase NRas Chains: C, H
Molecule details ›
Chains: C, H
Length: 10 amino acids
Theoretical weight: 901 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P01111 (Residues: 7-16; Coverage: 5%)
Gene names: HRAS1, NRAS
TCR alpha Chains: D, I
Molecule details ›
Chains: D, I
Length: 203 amino acids
Theoretical weight: 22.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
TCR beta Chains: E, J
Molecule details ›
Chains: E, J
Length: 245 amino acids
Theoretical weight: 27.49 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P41212
Unit cell:
a: 208.366Å b: 208.366Å c: 124.671Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.228 0.254
Expression systems:
  • Escherichia coli
  • Not provided

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