5E7V image
Deposition Date 2015-10-13
Release Date 2015-11-25
Last Version Date 2024-01-10
Entry Detail
PDB ID:
5E7V
Keywords:
Title:
Potent Vitamin D Receptor Agonist
Biological Source:
Source Organism:
Danio rerio (Taxon ID: 7955)
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.40 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 65 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Vitamin D3 receptor A
Gene (Uniprot):vdra
Chain IDs:A
Chain Length:300
Number of Molecules:1
Biological Source:Danio rerio
Polymer Type:polypeptide(L)
Molecule:Nuclear receptor coactivator 1
Chain IDs:B
Chain Length:15
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Carborane-based design of a potent vitamin D receptor agonist.
Chem Sci 7 1033 1037 (2016)
PMID: 28808527 DOI: 10.1039/c5sc03084f

Abstact

The vitamin D nuclear receptor (VDR) is a potential target for cancer therapy. It is expressed in many tumors and its ligand shows anticancer actions. To combine these properties with the application of boron neutron capture therapy (BNCT), we design and synthesize a potent VDR agonist based on the skeleton of the hormone 1α,25-dihydroxyvitamin D3 (1,25D) and an o-carborane (dicarba-o-closo-1,2-dodecaborane) at the end of its side chain. The present ligand is the first secosteroidal analog with the carborane unit that efficiently binds to VDR and functions as an agonist with 1,25D-like potency in transcriptional assay on vitamin D target genes. Moreover it exhibits similar antiproliferative and pro-differentiating activities but is significantly less hypercalcemic than 1,25D. The crystal structure of its complex with VDR ligand binding domain reveals its binding mechanism involving boron-mediated dihydrogen bonds that mimic vitamin D hydroxyl interactions. In addition to the therapeutic interest, this study establishes the basis for the design of new unconventional vitamin D analogs containing carborane moieties for specific molecular recognition, and drug research and development.

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Primary Citation of related structures