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Structure of an S. pombe APTX/DNA/AMP/Zn complex
DOI:10.2210/pdb3szq/pdb   NDB ID: NA1234
3SZQ
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 30267.34
    Molecule: Aprataxin-like protein
    Polymer: 1 Type: protein_D Length: 206
    Chains: A
    EC#: 3   
    Fragment: APTX HIT-ZNF catalytic domain (UNP residues 31-232)
    Organism: Schizosaccharomyces pombe 972h-
    Gene Names: hnt3 SPCC18.09c
    UniProtKB: Protein Feature View | Search PDB | O74859  
    Molecule: 5'-D(*CP*CP*CP*TP*G)-3'
    Polymer: 2 Type: dna Length: 5
    Chains: B
    Molecule: 5'-D(*TP*AP*TP*CP*GP*GP*AP*AP*TP*CP*AP*GP*GP*G)-3'
    Polymer: 3 Type: dna Length: 14
    Chains: C
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Schizosaccharomyces pombe   Taxonomy   Common Name: Fission yeast Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    AMP
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    AMP C10 H14 N5 O7 P
    ADENOSINE MONOPHOSPHATE
    AMP:3SZQ
    BME
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    BME C2 H6 O S
    BETA-MERCAPTOETHANOL
    ZN
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    ZN Zn
    ZINC ION
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA1234
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Tumbale, P.,  Krahn, J.,  Williams, R.S.

    Deposition:   2011-07-19
    Release:   2011-10-12
    Last Modified (REVDAT):   2011-11-23
     
  •   Revision History    Hide
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    2011-11-23
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.35
    R-Value: 0.165 (obs.)
    R-Free: 0.211
    Space Group: I 4 3 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 157.05 α = 90.00 
    b = 157.05 β = 90.00 
    c = 157.05 γ = 90.00