1D9X

CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.256 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of UvrB, a DNA helicase adapted for nucleotide excision repair.

Theis, K.Chen, P.J.Skorvaga, M.Van Houten, B.Kisker, C.

(1999) EMBO J. 18: 6899-6907

  • DOI: 10.1093/emboj/18.24.6899
  • Primary Citation of Related Structures:  1D9Z

  • PubMed Abstract: 
  • Nucleotide excision repair (NER) is a highly conserved DNA repair mechanism. NER systems recognize the damaged DNA strand, cleave it on both sides of the lesion, remove and newly synthesize the fragment. UvrB is a central component of the bacterial N ...

    Nucleotide excision repair (NER) is a highly conserved DNA repair mechanism. NER systems recognize the damaged DNA strand, cleave it on both sides of the lesion, remove and newly synthesize the fragment. UvrB is a central component of the bacterial NER system participating in damage recognition, strand excision and repair synthesis. We have solved the crystal structure of UvrB in the apo and the ATP-bound forms. UvrB contains two domains related in structure to helicases, and two additional domains unique to repair proteins. The structure contains all elements of an intact helicase, and is evidence that UvrB utilizes ATP hydrolysis to move along the DNA to probe for damage. The location of conserved residues and structural comparisons allow us to predict the path of the DNA and suggest that the tight pre-incision complex of UvrB and the damaged DNA is formed by insertion of a flexible beta-hairpin between the two DNA strands.


    Related Citations: 
    • Strand opening by the UvrA2B complex allows dynamic recognition of DNA damage
      Zou, Y.,Van Houten, B.
      (1999) Embo J. 18: 4889


    Organizational Affiliation

    Department of Pharmacological Sciences, State University of New York at Stony Brook, Stony Brook, NY 11794-8651, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
EXCINUCLEASE UVRABC COMPONENT UVRB
A
658Bacillus caldotenaxGene Names: uvrB
Find proteins for P56981 (Bacillus caldotenax)
Go to UniProtKB:  P56981
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.256 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 150.207α = 90.00
b = 150.207β = 90.00
c = 79.516γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
X-PLORrefinement
MARMADdata reduction
SHARPphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-05-03
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2016-12-14
    Type: Other