2OQ4

Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.432 
  • R-Value Work: 0.374 
  • R-Value Observed: 0.374 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Active site plasticity of endonuclease VIII: Conformational changes compensating for different substrates and mutations of critical residues

Golan, G.Zharkov, D.O.Grollman, A.P.Shoham, G.

To be published.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Endonuclease VIII AB262Escherichia coliMutation(s): 1 
Gene Names: nei
EC: 3.2.2 (PDB Primary Data), 4.2.99.18 (PDB Primary Data)
Find proteins for P50465 (Escherichia coli (strain K12))
Explore P50465 
Go to UniProtKB:  P50465
Protein Feature View
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  • Reference Sequence
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  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-D(*G*GP*CP*TP*TP*CP*AP*TP*CP*CP*TP*GP*G)-3'C, E13N/A
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      5'-D(*C*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3'D, F13N/A
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.60 Å
      • R-Value Free: 0.432 
      • R-Value Work: 0.374 
      • R-Value Observed: 0.374 
      • Space Group: P 43 21 2
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 107.13α = 90
      b = 107.13β = 90
      c = 164.86γ = 90
      Software Package:
      Software NamePurpose
      CNSrefinement
      d*TREKdata reduction
      d*TREKdata scaling
      CNSphasing

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      Revision History  (Full details and data files)

      • Version 1.0: 2008-02-26
        Type: Initial release
      • Version 1.1: 2011-07-13
        Changes: Version format compliance