1zhn

X-ray diffraction
2.8Å resolution

Crystal Structure of mouse CD1d bound to the self ligand phosphatidylcholine

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-135077 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Antigen-presenting glycoprotein CD1d1 Chain: A
Molecule details ›
Chain: A
Length: 273 amino acids
Theoretical weight: 31.13 KDa
Source organism: Mus musculus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P11609 (Residues: 25-297; Coverage: 87%)
Gene names: Cd1.1, Cd1d1
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: Drosophila melanogaster
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer : NEW Components: NAG, FUC, MAN
3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P212121
Unit cell:
a: 41.798Å b: 106.909Å c: 110.06Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.216 0.281
Expression system: Drosophila melanogaster