PDBe 3qzw

X-ray diffraction
2.8Å resolution

Plasticity of human CD8 binding to peptide-HLA-A*2402

Released:
Primary publication:
Plasticity of human CD8αα binding to peptide-HLA-A*2402.
Mol. Immunol. 48 2198-202 (2011)
PMID: 21645925

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
HLA class I histocompatibility antigen, A-24 alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 274 amino acids
Theoretical weight: 31.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P05534 (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
Protein Nef Chains: C, F
Molecule details ›
Chains: C, F
Length: 10 amino acids
Theoretical weight: 1.29 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: Q9YYU8 (Residues: 134-143; Coverage: 5%)
Gene name: nef
T-cell surface glycoprotein CD8 alpha chain Chains: G, H, I, J
Molecule details ›
Chains: G, H, I, J
Length: 114 amino acids
Theoretical weight: 12.85 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01732 (Residues: 22-135; Coverage: 53%)
Gene names: CD8A, MAL
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P1
Unit cell:
a: 66.239Å b: 67.019Å c: 101.144Å
α: 73.71° β: 71.84° γ: 81.43°
R-values:
R R work R free
0.205 0.202 0.26
Expression systems:
  • Escherichia coli
  • Not provided