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Crystal Structure of XIAP-BIR3 domain in complex with Smac-mimetic compuond, Smac005
3CM7
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ligase , Apoptosis
    Structure Weight: 61918.82
    Molecule: Baculoviral IAP repeat-containing protein 4
    Polymer: 1 Type: protein Length: 130
    Chains: A, B, C, D
    EC#: 6.3.2   
    Fragment: UNP residues 241-356
    Organism: Homo sapiens
    Gene Names: Gene View for XIAP API3 BIRC4 IAP3
    UniProtKB: Protein Feature View | Search PDB | P98170  
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    1G73  Crystal structure of XIAP BIR3 domain in complex with Smac/DIABLO 
    3CLX  Crystal Structure of XIAP BIR3 domain in complex with a Smac-mimetic compound, X22 
    3CM2  Crystal Structure of XIAP BIR3 domain in complex with a Smac-mimetic compound, X23 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    X22
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    X22 C28 H36 N4 O4
    (3S,6S,7S,9aS)-6-{[(2S)-2-aminobutanoyl]amino}- N-(diphenylmethyl)-7-(hydroxymethyl)-5-oxooctahydro- 1H-pyrrolo[1,2-a]azepine-3-carboxamide
    X22:3CM7
    ZN
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    ZN Zn
    ZINC ION
     
  •   External Ligand Annotations Hide
    Identifier   Binding Affinity (Sequence Identity %)
    X22
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    X22
    IC50: 270 - 290 nM (98 - 100) - data from BindingDB  
    Ki: 250 nM (100) - data from BindingDB  
    N/Ain BindingMoad
    N/Ain PDBbind
     
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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 generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Mastrangelo, E.,  Cossu, F.,  Milani, M.

    Deposition:   2008-03-21
    Release:   2008-10-28
    Last Modified (REVDAT):   2009-06-09
     
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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]:   3.10
    R-Value: 0.236 (obs.)
    R-Free: 0.300
    Space Group: P 41 21 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 92.39 α = 90.00 
    b = 92.39 β = 90.00 
    c = 175.15 γ = 90.00