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Crystal structure of the LBD of VDR of Danio rerio in complex with calcitriol
2HC4
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Gene Regulation
    Structure Weight: 36253.63
    Molecule: Vitamin D receptor
    Polymer: 1 Type: protein Length: 302
    Chains: A
    Fragment: Ligand binding domain
    Organism: Danio rerio
    Gene Names: vdra nr1i1a vdr
    UniProtKB: Protein Feature View | Search PDB | Q9PTN2  
    Molecule: SRC-1 from Nuclear receptor coactivator 1
    Polymer: 2 Type: protein Length: 15
    Chains: B
    EC#: 2.3.1.48   
    Organism: Homo sapiens
    Gene Names: Gene View for NCOA1 BHLHE74 SRC1
    UniProtKB: Protein Feature View | Search PDB | Q15788  
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Danio rerio   Taxonomy   Common Name: Zebrafish Expression System: Escherichia coli bl21(de3)  
    Polymer: 2
    Scientific Name: Synthetic construct (Homo sapiens)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1DB1   
    2HBH   
    2HCD   
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    VDX
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    VDX C27 H44 O3
    5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A- METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}- 4-METHYLENE-CYCLOHEXANE-1,3-DIOL
    VDX:2HC4
     
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  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Ciesielski, F.,  Rochel, N.,  Moras, D.

    Deposition:   2006-06-15
    Release:   2007-05-01
    Last Modified (REVDAT):   2009-02-24
     
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    2011-07-13
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  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.20
    R-Value: 0.220 (obs.)
    R-Free: 0.250
    Space Group: P 65 2 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 65.83 α = 90.00 
    b = 65.83 β = 90.00 
    c = 264.84 γ = 120.00