1EUI

ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

X-ray analysis of a complex of Escherichia coli uracil DNA glycosylase (EcUDG) with a proteinaceous inhibitor. The structure elucidation of a prokaryotic UDG.

Ravishankar, R.Bidya Sagar, M.Roy, S.Purnapatre, K.Handa, P.Varshney, U.Vijayan, M.

(1998) Nucleic Acids Res. 26: 4880-4887

  • Also Cited By: 2ZHX, 3A7N, 4WPK, 4WPL, 4WRU, 4WRV, 4WRW, 4WRX, 4WRY, 4WRZ, 4WS0, 4WS1, 4WS2, 4WS3, 4WS4, 4WS5, 4WS6, 4WS7, 4WS8

  • PubMed Abstract: 
  • Uracil-DNA glycosylase (UDG), a key highly conserved DNA repair enzyme involved in uracil excision repair, was discovered in Escherichia coli . The Bacillus subtilis bacteriophage, PBS-1 and PBS-2, which contain dUMP residues in their DNA, express a ...

    Uracil-DNA glycosylase (UDG), a key highly conserved DNA repair enzyme involved in uracil excision repair, was discovered in Escherichia coli . The Bacillus subtilis bacteriophage, PBS-1 and PBS-2, which contain dUMP residues in their DNA, express a UDG inhibitor protein, Ugi which binds to UDG very tightly to form a physiologically irreversible complex. The X-ray analysis of the E. coli UDG ( Ec UDG)-Ugi complex at 3.2 A resolution, leads to the first structure elucidation of a bacterial UDG molecule. This structure is similar to the enzymes from human and viral sources. A comparison of the available structures involving UDG permits the delineation of the constant and the variable regions of the molecule. Structural comparison and mutational analysis also indicate that the mode of action of the enzyme from these sources are the same. The crystal structure shows a remarkable spatial conservation of the active site residues involved in DNA binding in spite of significant differences in the structure of the enzyme-inhibitor complex, in comparison with those from the mammalian and viral sources. Ec UDG could serve as a prototype for UDGs from pathogenic prokaryotes, and provide a framework for possible drug development against such pathogens with emphasis on features of the molecule that differ from those in the human enzyme.


    Related Citations: 
    • Use of a Coupled Transcriptional System for Consistent Overexpression and Purification of Udg-Ugi Complex and Ugi from Escherichia Coli
      Roy, S.,Purnapatre, K.,Handa, P.,Boyanapalli, M.,Varshney, U.
      (1998) Protein Expr.Purif. 13: 155


    Organizational Affiliation

    Molecular Biophysics Unit and Department of Microbiology and Cell Biology, Indian Institute of Science,Bangalore 560 012, India.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
URACIL-DNA GLYCOSYLASE
A, B
228Escherichia coli (strain K12)Gene Names: ung
EC: 3.2.2.27
Find proteins for P12295 (Escherichia coli (strain K12))
Go to UniProtKB:  P12295
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN
C, D
84Bacillus phage PBS2Gene Names: UGI
Find proteins for P14739 (Bacillus phage PBS2)
Go to UniProtKB:  P14739
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 51.373α = 90.00
b = 89.772β = 90.00
c = 142.132γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
SCALEPACKdata scaling
X-PLORrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-06-22
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance