› 1inq

X-ray diffraction
2.2Å resolution

Structure of Minor Histocompatibility Antigen peptide, H13a, complexed to H2-Db

Released:
DOI: 10.2210/pdb1inq/pdb
PDB entry 1inq coloured by chain, front view.
PDB entry 1inq coloured by chain, side view.
PDB entry 1inq coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
How H13 histocompatibility peptides differing by a single methyl group and lacking conventional MHC binding anchor motifs determine self-nonself discrimination.
Ostrov DA, Roden MM, Shi W, Palmieri E, Christianson GJ, Mendoza L, Villaflor G, Tilley D, Shastri N, Grey H, Almo SC, Roopenian D, Nathenson SG
J Immunol 168 283-9 (2002)
PMID: 11751972

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-135021 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, D-B alpha chain Chain: A
Molecule details ›
Chain: A
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 Chain: B
Molecule details ›
Chain: B
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
Minor histocompatibility antigen H13 Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.01 KDa
Source organism: Mus musculus
Expression system: Not provided
UniProt:
  • Canonical: Q9D8V0 (Residues: 169-177; Coverage: 2%)
Gene names: H13, Hm13, Psl3

Ligands and Environments

1 bound ligand:
Ligand DMS 1 x DMS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X9B
Spacegroup: C2
Unit cell:
a: 92.64Å b: 109.42Å c: 57.56Å
α: 90° β: 120.01° γ: 90°
R-values:
R R work R free
0.212 0.208 0.258
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

The immunogenomics of minor histocompatibility antigens.
Roopenian et al. (2002)
4 more

2 mentions without citation

Structural allele-specific patterns adopted by epitopes in the MHC-I cleft and reconstruction of MHC:peptide complexes to cross-reactivity assessment.
Antunes et al. (2010)
1 more