› 4i0p

X-ray diffraction
3.2Å resolution

HLA-DO in complex with HLA-DM

Released:
DOI: 10.2210/pdb4i0p/pdb
PDB entry 4i0p coloured by chain, front view.
PDB entry 4i0p coloured by chain, side view.
PDB entry 4i0p coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
HLA-DO acts as a substrate mimic to inhibit HLA-DM by a competitive mechanism.
Guce AI, Mortimer SE, Yoon T, Painter CA, Jiang W, Mellins ED, Stern LJ
Nat Struct Mol Biol 20 90-8 (2013)
PMID: 23222639

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-139003 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Ig-like domain-containing protein Chains: A, E
Molecule details ›
Chains: A, E
Length: 188 amino acids
Theoretical weight: 21.3 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: Q6ICR9 (Residues: 39-226; Coverage: 80%)
Gene name: HLA-DMA
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DM beta chain Chains: B, F
Molecule details ›
Chains: B, F
Length: 191 amino acids
Theoretical weight: 21.51 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P28068 (Residues: 21-211; Coverage: 78%)
Gene names: DMB, HLA-DMB, RING7
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DO alpha chain Chains: C, G
Molecule details ›
Chains: C, G
Length: 181 amino acids
Theoretical weight: 20.58 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P06340 (Residues: 27-207; Coverage: 80%)
Gene names: HLA-DNA, HLA-DOA, HLA-DZA
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DO beta chain Chains: D, H
Molecule details ›
Chains: D, H
Length: 189 amino acids
Theoretical weight: 21.63 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P13765 (Residues: 30-218; Coverage: 77%)
Gene name: HLA-DOB
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand NAG 7 x NAG
Ligand GOL 3 x GOL
Ligand PGE 1 x PGE
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21
Unit cell:
a: 83.26Å b: 147.1Å c: 95.959Å
α: 90° β: 106.49° γ: 90°
R-values:
R R work R free
0.191 0.188 0.242
Expression system: Drosophila melanogaster

Quick links

Citations

33 review citations

Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation.
Wieczorek et al. (2017)
32 more

2 mentions without citation

pH-susceptibility of HLA-DO tunes DO/DM ratios to regulate HLA-DM catalytic activity.
Jiang et al. (2015)
1 more