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Crystal structure of restriction endonuclease EcoRII catalytic C-terminal domain in complex with cognate DNA
DOI:10.2210/pdb3hqg/pdb   NDB ID: NA0040
3HQG
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 32995.34
    Molecule: Type-2 restriction enzyme EcoRII
    Polymer: 1 Type: protein Length: 222
    Chains: A
    EC#: 3.1.21.4   
    Fragment: C-terminal catalytic domain (UNP residues 183-404)
    Organism: Escherichia coli
    Gene Name: ecoRIIR
    UniProtKB: Protein Feature View | Search PDB | P14633  
    Molecule: 5'-D(*TP*CP*GP*AP*CP*CP*AP*GP*GP*CP*TP*A)-3'
    Polymer: 2 Type: dna Length: 12
    Chains: B
    Molecule: 5'-D(*TP*AP*GP*CP*CP*TP*GP*GP*TP*CP*GP*A)-3'
    Polymer: 3 Type: dna Length: 12
    Chains: C
     
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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1na6  EcoRII-R88A 
    3HQF   
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    GOL
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    GOL C3 H8 O3
    GLYCEROL
     
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  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA0040
     
 
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:   Golovenko, D.,  Manakova, E.,  Grazulis, S.,  Tamulaitiene, G.,  Siksnys, V.

    Deposition:   2009-06-06
    Release:   2009-09-22
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
    2011-07-13
    Flag residual B-value
    2011-07-13
    Refinement description
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.60
    R-Value: 0.242 (obs.)
    R-Free: 0.293
    Space Group: P 21 21 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 77.05 α = 90.00 
    b = 57.97 β = 90.00 
    c = 61.01 γ = 90.00