4DFC

Core UvrA/TRCF complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.803 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Nucleotide excision repair (NER) machinery recruitment by the transcription-repair coupling factor involves unmasking of a conserved intramolecular interface.

Deaconescu, A.M.Sevostyanova, A.Artsimovitch, I.Grigorieff, N.

(2012) Proc.Natl.Acad.Sci.USA 109: 3353-3358

  • DOI: 10.1073/pnas.1115105109

  • PubMed Abstract: 
  • Transcription-coupled DNA repair targets DNA lesions that block progression of elongating RNA polymerases. In bacteria, the transcription-repair coupling factor (TRCF; also known as Mfd) SF2 ATPase recognizes RNA polymerase stalled at a site of DNA d ...

    Transcription-coupled DNA repair targets DNA lesions that block progression of elongating RNA polymerases. In bacteria, the transcription-repair coupling factor (TRCF; also known as Mfd) SF2 ATPase recognizes RNA polymerase stalled at a site of DNA damage, removes the enzyme from the DNA, and recruits the Uvr(A)BC nucleotide excision repair machinery via UvrA binding. Previous studies of TRCF revealed a molecular architecture incompatible with UvrA binding, leaving its recruitment mechanism unclear. Here, we examine the UvrA recognition determinants of TRCF using X-ray crystallography of a core TRCF-UvrA complex and probe the conformational flexibility of TRCF in the absence and presence of nucleotides using small-angle X-ray scattering. We demonstrate that the C-terminal domain of TRCF is inhibitory for UvrA binding, but not RNA polymerase release, and show that nucleotide binding induces concerted multidomain motions. Our studies suggest that autoinhibition of UvrA binding in TRCF may be relieved only upon engaging the DNA damage.


    Organizational Affiliation

    Howard Hughes Medical Institute, The Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcription-repair-coupling factor
A, C
93Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: mfd
EC: 3.6.4.-
Find proteins for P30958 (Escherichia coli (strain K12))
Go to UniProtKB:  P30958
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
UvrABC system protein A
B, D
126Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: uvrA (dinE)
Find proteins for P0A698 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A698
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.803 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 
  • Space Group: P 62 2 2
Unit Cell:
Length (Å)Angle (°)
a = 119.168α = 90.00
b = 119.168β = 90.00
c = 234.334γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
PHASERphasing
PHENIXrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-05-02
    Type: Initial release