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Catalytically inactive hOGG1 crosslinked with 7-deaza-8-azaguanine containing DNA
 
 
DOI:10.2210/pdb1yql/pdb   NDB ID: PD0630
1YQL
 
Primary Citation
spinning wheel
 
 
  •  
    Move Section Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 43706.23
     
    Molecule:5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*C)-3'
    Polymer:1Type:polydeoxyribonucleotideLength:13
    Chains:B
    Molecule:5'-D(P*GP*TP*CP*CP*AP*(PPW)P*GP*TP*CP*TP*AP*C)-3'
    Polymer:2Type:polydeoxyribonucleotideLength:12
    Chains:C
    Molecule:N-glycosylase/DNA lyase
    Polymer:3Type:polypeptide(L)Length:319
    Chains:A
    EC#:3.2.2.- Go to IUBMB EC entry  
    Fragment:8-oxoguanine DNA glycosylase
    Mutation:N149C,K249Q
     
     
  •  
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    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: Homo sapiens Go to NCBI Taxonomy entry Common Name: Human Expression System: Escherichia coli bl21(de3)  
     
     
  •  
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    Id Details
    1EBM  hOGG1 bound to oxoG containing DNA 
    1YQK  hOGG1 crosslinked with guanine containing DNA 
    1YQM  crosslinked to 7-deazaguanine containing DNA 
    1YQR  hOGG1 crosslinked to oxoG containing DNA 
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    CA     CALCIUM ION Ca 3DLigand Explorer Link out to Ligand Expos:CA Link out to SuperLigands:CA Link out to SuperHapten:CA
     
     
  •  
    Move Section Modified Residues Hide
    Identifier Name Formula Interaction View Links
    PPW 7-DEAZA-8-AZA-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE (parent: DG)(type: dnaLinking) C10 H14 N5 O7 P 3D Ligand Explorer Link out to Ligand Expos:PPW Link out to SuperLigands:PPW Link out to SuperHapten:PPW 2D
     
     
  •  
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  •  
    Move Section Deposition Summary Hide
    Authors:   Banerjee, A.,   Yang, W.,   Karplus, M.,   Verdine, G.L.

    Deposition:   2005-02-02
    Release:   2005-04-05
    Last Modified (REVDAT):   2009-02-24
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors
    View a histogram of Resolution Resolution[Å]: 2.60
    R-Value: 0.213 (obs.)
    R-Free: 0.260
    Space Group: P 65 2 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 92.32 α = 90.00 
    b = 92.32 β = 90.00 
    c = 210.74 γ = 120.00