RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dCTP Opposite dG
DOI:10.2210/pdb3ne6/pdb   NDB ID: NA0586
Primary Citation
  •   Molecular Description Hide
    Classification: Transferase/dna
    Structure Weight: 114694.82
    Molecule: DNA polymerase
    Polymer: 1 Type: protein Length: 903
    Chains: A
    Mutation: D222A, D327A, S565G, Y567A
    Organism: Enterobacteria phage RB69
    Gene Name: 43
    UniProtKB: Search PDB | Q38087   Protein Feature View
    Molecule: DNA (5'-D(*TP*CP*AP*GP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3')
    Polymer: 2 Type: dna Length: 18
    Chains: T
    Details: Template DNA strand
    Molecule: DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*(DOC))-3')
    Polymer: 3 Type: dna Length: 13
    Chains: P
    Details: Primer DNA strand
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot

  •   Related Citations in PDB Entry (REMARK 1) Hide
  •   Source Hide
    Polymer: 1
    Scientific Name: Enterobacteria phage rb69   Taxonomy   Common Name: Bacteriophage rb69 Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
  •   Related PDB Entries Hide
    Identifier Details
    1IG9   Structure of the Replicating Complex of a Pol Alpha Family DNA Polymerase 
    3LZI   RB69 DNA Polymerase (Y567A) ternary complex with dATP Opposite 7,8-dihydro-8-oxoguanine 
    3LZJ   RB69 DNA Polymerase (Y567A) ternary complex with dCTP Opposite 7,8-Dihydro-8-oxoguanine 
    3NAE   RB69 DNA Polymerase (Y567A) Ternary Complex with dATP Opposite Guanidinohydantoin 
    3NCI   RB69 DNA Polymerase Ternary Complex with dCTP Opposite dG at 1.8 angstrom resolution 
    3NDK   RB69 DNA Polymerase (Y567A) Ternary Complex with dCTP Opposite dG 
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    CA Ca
    DCP C9 H16 N3 O13 P3
  •   Modified Residues Hide
    Identifier Formula Parent Type
    DOC C9 H14 N3 O6 P DC dnaLinking
  •   External Domain Annotations Hide
  •   Structural Biology Knowledgebase Data Hide
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:NA0586
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Wang, M.,  Wang, J.,  Konigsberg, W.H.

    Deposition:   2010-06-08
    Release:   2011-01-26
    Last Modified (REVDAT):   2011-03-02
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  •   Experimental Details Hide
    Exp. Data:
      Structure Factors
    Resolution[Å]:   2.00
    R-Value: 0.186 (obs.)
    R-Free: 0.226
    Space Group: P 21 21 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 75.14 α = 90.00 
    b = 119.78 β = 90.00 
    c = 130.65 γ = 90.00