PDB Entry (5zwh) |
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PDB ID: 5zwh | Resolution: 2.38 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 29936834 | DOI: 10.1021/acs.jmedchem.8b00774 | |
Protein |
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Protein Name: Vitamin D3 receptor | |
Uniprot ID/ACC: P13053 (VDR_RAT) | Organism: Rattus norvegicus (Rat) |
Gene Symbol: Vdr | Gene ID: 24873 |
Protein Class: SIGNALING PROTEIN |
Ligand |
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Ligand Name: 2-[(1R,3R,7E,17beta)-1,3-Dihydroxy-2-methylidene-9,10-secoestra-5,7-dien-17-yl]-oct-6-en-4-yn-3-one | ||
Canonical SMILES: C/C=C/C#CC(=O)[C@@H](C)[C@H]1CC[C@H]([C@@]12C)/C(CCC2)=C/C=C3\C[C@@H](O)C(=C)[C@H](O)C3 | ||
Standard InChI: InChI=1S/C27H36O3/c1-5-6-7-10-24(28)18(2)22-13-14-23-21(9-8-15-27(22,23)4)12-11-20-16-25(29)19(3)26(30)17-20/h5-6,11-12,18,22-23,25-26,29-30H,3,8-9,13-17H2,1-2,4H3/b6-5+,21-12+/t18-,22+,23-,25+,26+,27+/m0/s1 | ||
HET Code: 9KX | PubChem: 134693766 | |
DrugBank: - | ChEMBL: - | |
Molecular Formula: C27H36O3 | Mol. Weight: 408.26645 | logP: 4.9121 |
HBD: 2 | HBA: 3 | |
#Rotatable Bonds: 3 | TPSA: 57.53 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Michael Addition | HIS 301 | A | 41.74 | 1.25 | Propargyl Carbonyl |
Binding Affinity |
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