› 6h6d

X-ray diffraction
2.4Å resolution

Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with adenovirus-derived peptide Ad10

Released:
DOI: 10.2210/pdb6h6d/pdb
PDB entry 6h6d coloured by chain, front view.
PDB entry 6h6d coloured by chain, side view.
PDB entry 6h6d coloured by chain, top view.
Source organisms:
Entry authors: Achour A, Sandalova T, Han X

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-525584 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, D-B alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 338 amino acids
Theoretical weight: 38.45 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01899 (Residues: 25-362; Coverage: 100%)
Gene name: H2-D1
Sequence domains:
Beta-2-microglobulin Chains: B, E
Molecule details ›
Chains: B, E
Length: 99 amino acids
Theoretical weight: 11.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Early E1A protein Chains: C, F
Molecule details ›
Chains: C, F
Length: 10 amino acids
Theoretical weight: 998 Da
Source organism: unidentified adenovirus
Expression system: Not provided
UniProt:
  • Canonical: P03255 (Residues: 234-243; Coverage: 4%)

Ligands and Environments

3 bound ligands:
Ligand SO4 4 x SO4
Ligand GOL 8 x GOL
Ligand CL 11 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P1
Unit cell:
a: 47.14Å b: 69.24Å c: 87.16Å
α: 84.2° β: 86.69° γ: 81.75°
R-values:
R R work R free
0.2 0.198 0.233
Expression systems:
  • Escherichia coli BL21
  • Not provided

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