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Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA
DOI:10.2210/pdb1x9n/pdb   NDB ID: PD0587
1X9N
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Ligase/dna
    Structure Weight: 94110.48
    Molecule: dideoxy terminated DNA
    Polymer: 1 Type: dna Length: 13
    Chains: B
    Molecule: 5'-phosphorylated DNA
    Polymer: 2 Type: dna Length: 15
    Chains: C
    Molecule: template DNA
    Polymer: 3 Type: dna Length: 28
    Chains: D
    Molecule: DNA ligase I
    Polymer: 4 Type: protein Length: 688
    Chains: A
    EC#: 6.5.1.1   
    Organism Homo sapiens
    Gene Name LIG1
    UniProtKB:   Protein Feature View | Search PDB | P18858  
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 4
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    AMP
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    AMP C10 H14 N5 O7 P
    ADENOSINE MONOPHOSPHATE
    AMP:1X9N
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    DOC
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    DOC C9 H14 N3 O6 P DC dnaLinking
    MSE
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    MSE C5 H11 N O2 Se MET lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: PD0587
     
 
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:   Pascal, J.M.,  O'Brien, P.J.,  Tomkinson, A.E.,  Ellenberger, T.

    Deposition:   2004-08-23
    Release:   2004-11-30
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
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    2011-07-13
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  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.00
    R-Value: 0.236 (obs.)
    R-Free: 0.268
    Space Group: P 63
    Unit Cell:
      Length [Å] Angles [°]
    a = 161.89 α = 90.00 
    b = 161.89 β = 90.00 
    c = 88.46 γ = 120.00