PDBe 1zt4

X-ray diffraction
3Å resolution

The crystal structure of human CD1d with and without alpha-Galactosylceramide

Released:

Function and Biology Details

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
hetero tetramer
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Antigen-presenting glycoprotein CD1d Chains: A, C
Molecule details ›
Chains: A, C
Length: 281 amino acids
Theoretical weight: 31.82 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P15813 (Residues: 19-299; Coverage: 89%)
Gene name: CD1D
Sequence domains: Immunoglobulin C1-set domain
Structure domains:
Beta-2-microglobulin Chains: B, D
Molecule details ›
Chains: B, D
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: P212121
Unit cell:
a: 50.47Å b: 94.3Å c: 176.07Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.234 0.234 0.326
Expression system: Escherichia coli