› 4f7m

X-ray diffraction
2.4Å resolution

Crystal Structure of HLA-A*2402 Complexed with a Newly Identified Peptide from 2009 H1N1 PA (649-658)

Released:
DOI: 10.2210/pdb4f7m/pdb
PDB entry 4f7m coloured by chain, front view.
PDB entry 4f7m coloured by chain, side view.
PDB entry 4f7m coloured by chain, top view.
Source organisms:
Primary publication:
Cross-allele cytotoxic T lymphocyte responses against 2009 pandemic H1N1 influenza A virus among HLA-A24 and HLA-A3 supertype-positive individuals.
Liu J, Zhang S, Tan S, Yi Y, Wu B, Cao B, Zhu F, Wang C, Wang H, Qi J, Gao GF
J Virol 86 13281-94 (2012)
PMID: 23015716

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-137836 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class I histocompatibility antigen, A alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 275 amino acids
Theoretical weight: 31.68 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04439 (Residues: 25-298; Coverage: 80%)
Gene names: HLA-A, HLAA
Sequence domains:
Structure 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
Structure domains: Immunoglobulins
Polymerase acidic protein Chains: C, F
Molecule details ›
Chains: C, F
Length: 10 amino acids
Theoretical weight: 1.12 KDa
Source organism: Influenza A virus H3N2
Expression system: Not provided
UniProt:
  • Canonical: Q9YXL3 (Residues: 649-658; Coverage: 1%)
Gene name: PA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P21
Unit cell:
a: 74.272Å b: 67.092Å c: 87.668Å
α: 90° β: 101.3° γ: 90°
R-values:
R R work R free
0.242 0.239 0.289
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

Human T-cell immunity against the emerging and re-emerging viruses.
Zhao et al. (2017)
2 more

4 mentions without citation

Cross-allele cytotoxic T lymphocyte responses against 2009 pandemic H1N1 influenza A virus among HLA-A24 and HLA-A3 supertype-positive individuals.
Liu et al. (2012)
3 more