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Crystal Structure of a Y-family DNA Polymerase in a Ternary Complex with DNA Substrates and an Incoming Nucleotide
 
 
DOI:10.2210/pdb1jx4/pdb   NDB ID: PD0251
1JX4
 
Primary Citation
spinning wheel
 
 
  •  
    Move Section Molecular Description Hide
    Classification: Transferase/dna
    Structure Weight: 50458.52
     
    Molecule:5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*A)-3'
    Polymer:1Type:polydeoxyribonucleotideLength:13
    Chains:P
    Molecule:5'-D(*T*TP*CP*AP*TP*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'
    Polymer:2Type:polydeoxyribonucleotideLength:18
    Chains:T
    Molecule:DNA polymerase IV (family Y)
    Polymer:3Type:polypeptide(L)Length:352
    Chains:A
    EC#:2.7.7.7 Go to IUBMB EC entry  
     
     
  •  
    Move Section Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
    Polymer: 2
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
    Polymer: 3
    Scientific Name: Sulfolobus solfataricus Go to NCBI Taxonomy entry Expression System: Escherichia coli  
     
     
  •  
    Move Section Related PDB Entries Hide
    Id Details
    1JXL  the same protein complexed with different substrates 
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    ADI     2',3'-DIDEOXYADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O8 P2 3DLigand Explorer Link out to Ligand Expos:ADI Link out to SuperLigands:ADI Link out to SuperHapten:ADI
    CA     CALCIUM ION Ca 3DLigand Explorer Link out to Ligand Expos:CA Link out to SuperLigands:CA Link out to SuperHapten:CA
    MG     MAGNESIUM ION Mg 3DLigand Explorer Link out to Ligand Expos:MG Link out to SuperLigands:MG Link out to SuperHapten:MG
     
     
  •  
    Move Section Modified Residues Hide
    Identifier Name Formula Interaction View Links
    ADI 2',3'-DIDEOXYADENOSINE-5'-DIPHOSPHATE (parent: A)(type: nonPolymer) C10 H15 N5 O8 P2 3D Ligand Explorer Link out to Ligand Expos:ADI Link out to SuperLigands:ADI Link out to SuperHapten:ADI 2D
     
     
  •  
    Move Section Derived Data Hide
     
     
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  •  
    Move Section Deposition Summary Hide
    Authors:   Ling, H.,   Boudsocq, F.,   Woodgate, R.,   Yang, W.

    Deposition:   2001-09-05
    Release:   2001-10-05
    Last Modified (REVDAT):   2009-02-24
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors  [ EDS External Link to EDS ]
    View a histogram of Resolution Resolution[Å]: 1.70
    R-Value: 0.213 (obs.)
    R-Free: 0.228
    Space Group: P 21 21 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 97.09 α = 90.00 
    b = 102.82 β = 90.00 
    c = 52.30 γ = 90.00