PDBe 3a78

X-ray diffraction
1.9Å resolution

Crystal structure of the human VDR ligand binding domain bound to the natural metabolite 1alpha,25-dihydroxy-3-epi-vitamin D3

Source organism: Homo sapiens
Entry authors: Sato Y, Sigueiro R, Antony P, Rochel N, Moras D

Function and Biology Details

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Vitamin D3 receptor Chain: A
Molecule details ›
Chain: A
Length: 263 amino acids
Theoretical weight: 29.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
  • Canonical: P11473 (Residues: 118-427; Coverage: 61%)
Gene names: NR1I1, VDR
Structure domains: Retinoid X Receptor

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 44.889Å b: 51.12Å c: 132.196Å
α: 90° β: 90° γ: 90°
R R work R free
0.174 0.172 0.203
Expression system: Escherichia coli BL21(DE3)