1UDI

NUCLEOTIDE MIMICRY IN THE CRYSTAL STRUCTURE OF THE URACIL-DNA GLYCOSYLASE-URACIL GLYCOSYLASE INHIBITOR PROTEIN COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.188 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Nucleotide mimicry in the crystal structure of the uracil-DNA glycosylase-uracil glycosylase inhibitor protein complex.

Savva, R.Pearl, L.H.

(1995) Nat.Struct.Mol.Biol. 2: 752-757


  • PubMed Abstract: 
  • The Bacillus subtilis bacteriophages PBS-1 and PBS-2 protect their uracil-containing DNA by expressing an inhibitor protein (UGI) which inactivates the host uracil-DNA glycosylase (UDGase) base-excision repair enzyme. Also, PBS1/2 UGI efficiently ina ...

    The Bacillus subtilis bacteriophages PBS-1 and PBS-2 protect their uracil-containing DNA by expressing an inhibitor protein (UGI) which inactivates the host uracil-DNA glycosylase (UDGase) base-excision repair enzyme. Also, PBS1/2 UGI efficiently inactivates UDGases from other biological sources, including the enzyme from herpes simplex virus type-1 (HSV-1). The crystal structure of the HSV-1 UDGase-PBS1 UGI complex at 2.7 angstrum reveals an alpha-beta-alpha sandwich structure for UGI which interacts with conserved regions of UDGase involved in DNA binding, and directly mimics protein-DNA interactions observed in the UDGase-oligonucleotide complex. The inhibitor completely blocks access to the active site of UDGase, but makes no direct contact with the uracil-binding pocket itself.


    Related Citations: 
    • The Structural Basis of Specific Base Excision Repair by Uracil-DNA Glycosylase
      Savva, R.,Mcauley-Hecht, K.,Brown, T.,Pearl, L.H.
      (1995) Nature 373: 487
    • Cloning and Expression of the Uracil-DNA Glycosylase Inhibitor from Bacteriophage Pbs1, and Crystallisation of a Uracil-DNA Glycosylase Uracil-DNA Glycosylase Inhibitor Complex
      Savva, R.,Pearl, L.H.
      (1995) Proteins 22: 287
    • Crystallization and Preliminary X-Ray Analysis of the Uracil-DNA Glycosylase DNA Repair Enzyme from Herpes Simplex Virus Type 1
      Savva, R.,Pearl, L.H.
      (1993) J.Mol.Biol. 234: 910


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University College, London, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
URACIL-DNA GLYCOSYLASE
E
244Human herpesvirus 1 (strain 17)Mutation(s): 0 
EC: 3.2.2.27
Find proteins for P10186 (Human herpesvirus 1 (strain 17))
Go to UniProtKB:  P10186
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN
I
83Bacillus phage PBS2Mutation(s): 0 
Gene Names: UGI
Find proteins for P14739 (Bacillus phage PBS2)
Go to UniProtKB:  P14739
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.188 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 144.120α = 90.00
b = 144.120β = 90.00
c = 40.950γ = 120.00
Software Package:
Software NamePurpose
X-PLORphasing
MOSFLMdata reduction
X-PLORrefinement
X-PLORmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1995-10-30 
  • Released Date: 1996-03-08 
  • Deposition Author(s): Pearl, L.H., Savva, R.

Revision History 

  • Version 1.0: 1996-03-08
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance