› 6vr5

X-ray diffraction
2.38Å resolution

Complex of HLA-A2, a class I MHC, with a p53 peptide

Released:
DOI: 10.2210/pdb6vr5/pdb
PDB entry 6vr5 coloured by chain, front view.
PDB entry 6vr5 coloured by chain, side view.
PDB entry 6vr5 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for oligoclonal T cell recognition of a shared p53 cancer neoantigen.
Wu D, Gallagher DT, Gowthaman R, Pierce BG, Mariuzza RA
Nat Commun 11 2908 (2020)
PMID: 32518267

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-102955 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chains: A, D
Molecule details ›
Chains: A, D
Length: 293 amino acids
Theoretical weight: 33.91 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A140T913 (Residues: 25-299; Coverage: 79%)
Gene name: HLA-A
Sequence domains:
Beta-2-microglobulin Chains: B, E
Molecule details ›
Chains: B, E
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
Cellular tumor antigen p53 Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 9 amino acids
Theoretical weight: 1.11 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04637 (Residues: 168-176; Coverage: 2%)
Gene names: P53, TP53

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-BM
Spacegroup: P21
Unit cell:
a: 71.596Å b: 79.656Å c: 85.862Å
α: 90° β: 102.11° γ: 90°
R-values:
R R work R free
0.231 0.229 0.28
Expression system: Escherichia coli

Quick links

Citations

11 review citations

TCR Recognition of Peptide-MHC-I: Rule Makers and Breakers.
Szeto et al. (2020)
10 more

4 mentions without citation

Structural assessment of HLA-A2-restricted SARS-CoV-2 spike epitopes recognized by public and private T-cell receptors.
Wu et al. (2022)
3 more