› 3az1

X-ray diffraction
1.5Å resolution

Crystal Structure Analysis of Vitamin D receptor

Released:
DOI: 10.2210/pdb3az1/pdb
PDB entry 3az1 coloured by chain, front view.
PDB entry 3az1 coloured by chain, side view.
PDB entry 3az1 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Novel nonsecosteroidal vitamin D3 carboxylic acid analogs for osteoporosis, and SAR analysis.
Kashiwagi H, Ono Y, Shimizu K, Haneishi T, Ito S, Iijima S, Kobayashi T, Ichikawa F, Harada S, Sato H, Sekiguchi N, Ishigai M, Takahashi T
Bioorg Med Chem 19 4721-9 (2011)
PMID: 21795053

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145848 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Vitamin D3 receptor Chain: A
Molecule details ›
Chain: A
Length: 253 amino acids
Theoretical weight: 28.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P11473 (Residues: 120-423; Coverage: 59%)
Gene names: NR1I1, VDR
Sequence domains: Ligand-binding domain of nuclear hormone receptor
Structure domains: Retinoid X Receptor

Ligands and Environments

1 bound ligand:
Ligand DS2 1 x DS2
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL32B2
Spacegroup: P212121
Unit cell:
a: 44.613Å b: 51.732Å c: 131.579Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.195 0.194 0.213
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Vitamin D and Its Synthetic Analogs.
Maestro et al. (2019)
4 more

2 mentions without citation

Pharmacological use of a novel scaffold, anomeric N,N-diarylamino tetrahydropyran: molecular similarity search, chemocentric target profiling, and experimental evidence.
Venkanna et al. (2017)
1 more