› 3cpl

X-ray diffraction
2.5Å resolution

Crystal Structure of H-2Db in complex with a variant M6A of the NP366 peptide from influenza A virus

Released:
DOI: 10.2210/pdb3cpl/pdb
PDB entry 3cpl coloured by chain, front view.
PDB entry 3cpl coloured by chain, side view.
PDB entry 3cpl coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Complete modification of TCR specificity and repertoire selection does not perturb a CD8+ T cell immunodominance hierarchy.
Kedzierska K, Guillonneau C, Gras S, Hatton LA, Webby R, Purcell AW, Rossjohn J, Doherty PC, Turner SJ
Proc Natl Acad Sci U S A 105 19408-13 (2008)
PMID: 19047637

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-135003 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, D-B alpha chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 275 amino acids
Theoretical weight: 31.99 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01899 (Residues: 25-299; Coverage: 81%)
Gene name: H2-D1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, D
Molecule details ›
Chains: B, D
Length: 99 amino acids
Theoretical weight: 11.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
NP366 peptide Chains: E, F
Molecule details ›
Chains: E, F
Length: 9 amino acids
Theoretical weight: 966 Da

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: P1
Unit cell:
a: 57.71Å b: 69.7Å c: 72.38Å
α: 99.95° β: 111.04° γ: 110.48°
R-values:
R R work R free
0.227 0.22 0.286
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Bias in the αβ T-cell repertoire: implications for disease pathogenesis and vaccination.
Miles et al. (2011)
7 more

5 mentions without citation

Protective efficacy of cross-reactive CD8+ T cells recognising mutant viral epitopes depends on peptide-MHC-I structural interactions and T cell activation threshold.
Valkenburg et al. (2010)
4 more