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R283K DNA polymerase beta binary complex with a templating 8OG
DOI:10.2210/pdb4gxi/pdb   NDB ID: NA2021
4GXI
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/dna
    Structure Weight: 47787.24
    Molecule: DNA polymerase beta
    Polymer: 1 Type: protein Length: 335
    Chains: A
    EC#: 2.7.7.7    4.2.99   
    Mutation: R283K
    Organism: Homo sapiens
    Gene Name: Gene View for POLB
    UniProtKB: Protein Feature View | Search PDB | P06746  
    Molecule: DNA (5'-D(*CP*CP*GP*AP*CP*(8OG)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3')
    Polymer: 2 Type: dna Length: 16
    Chains: T
    Organism: synthetic construct
    Molecule: DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3')
    Polymer: 3 Type: dna Length: 10
    Chains: P
    Organism: synthetic construct
    Molecule: DNA (5'-D(P*GP*TP*CP*GP*G)-3')
    Polymer: 4 Type: dna Length: 5
    Chains: D
    Organism: synthetic construct
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct (synthetic construct)   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct (synthetic construct)   Taxonomy    
    Polymer: 4
    Scientific Name: Synthetic construct (synthetic construct)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    4GXJ   
    4GXK   
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    NA
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    NA Na
    SODIUM ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    8OG
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    8OG C10 H14 N5 O8 P DG dnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA2021
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Freudenthal, B.D.,  Beard, W.A.,  Wilson, S.H.

    Deposition:   2012-09-04
    Release:   2013-01-16
    Last Modified (REVDAT):   2013-02-27
     
  •   Revision History    Hide
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    2013-02-27
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   1.95
    R-Value: 0.208 (obs.)
    R-Free: 0.259
    Space Group: P 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 54.80 α = 90.00 
    b = 79.26 β = 105.62 
    c = 54.37 γ = 90.00