1MWJ

Crystal Structure of a MUG-DNA pseudo substrate complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.230 

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This is version 1.3 of the entry. See complete history


Literature

Crystal Structure of a thwarted mismatch glycosylase DNA repair complex

Barrett, T.E.Scharer, O.Savva, R.Brown, T.Jiricny, J.Verdine, G.L.Pearl, L.H.

(1999) EMBO J 18: 6599-6609

  • DOI: 10.1093/emboj/18.23.6599
  • Primary Citation of Related Structures:  
    1MWJ

  • PubMed Abstract: 
  • The bacterial mismatch-specific uracil-DNA glycosylase (MUG) and eukaryotic thymine-DNA glycosylase (TDG) enzymes form a homologous family of DNA glycosylases that initiate base-excision repair of G:U/T mismatches. Despite low sequence homology, the MUG/TDG enzymes are structurally related to the uracil-DNA glycosylase enzymes, but have a very different mechanism for substrate recognition ...

    The bacterial mismatch-specific uracil-DNA glycosylase (MUG) and eukaryotic thymine-DNA glycosylase (TDG) enzymes form a homologous family of DNA glycosylases that initiate base-excision repair of G:U/T mismatches. Despite low sequence homology, the MUG/TDG enzymes are structurally related to the uracil-DNA glycosylase enzymes, but have a very different mechanism for substrate recognition. We have now determined the crystal structure of the Escherichia coli MUG enzyme complexed with an oligonucleotide containing a non-hydrolysable deoxyuridine analogue mismatched with guanine, providing the first structure of an intact substrate-nucleotide productively bound to a hydrolytic DNA glycosylase. The structure of this complex explains the preference for G:U over G:T mispairs, and reveals an essentially non-specific pyrimidine-binding pocket that allows MUG/TDG enzymes to excise the alkylated base, 3, N(4)-ethenocytosine. Together with structures for the free enzyme and for an abasic-DNA product complex, the MUG-substrate analogue complex reveals the conformational changes accompanying the catalytic cycle of substrate binding, base excision and product release.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
G/U mismatch-specific DNA glycosylaseB [auth A]168Escherichia coliMutation(s): 0 
Gene Names: mug
EC: 3.2.2 (PDB Primary Data), 3.2.2.28 (UniProt)
UniProt
Find proteins for P0A9H1 (Escherichia coli (strain K12))
Explore P0A9H1 
Go to UniProtKB:  P0A9H1
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-D(*CP*GP*CP*GP*A*GP*(DU)P*TP*CP*GP*CP*G)-3'A [auth D]12N/A
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.85 Å
    • R-Value Free: 0.252 
    • R-Value Work: 0.190 
    • R-Value Observed: 0.230 
    • Space Group: P 42 21 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 101.996α = 90
    b = 101.996β = 90
    c = 45.133γ = 90
    Software Package:
    Software NamePurpose
    DENZOdata reduction
    SCALEPACKdata scaling
    AMoREphasing
    X-PLORrefinement

    Structure Validation

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    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2002-10-11
      Type: Initial release
    • Version 1.1: 2008-04-28
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance
    • Version 1.3: 2017-10-11
      Changes: Advisory, Refinement description