4HQE

The crystal structure of QsrR-DNA complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.208 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular mechanism of quinone signaling mediated through S-quinonization of a YodB family repressor QsrR.

Ji, Q.Zhang, L.Jones, M.B.Sun, F.Deng, X.Liang, H.Cho, H.Brugarolas, P.Gao, Y.N.Peterson, S.N.Lan, L.Bae, T.He, C.

(2013) Proc Natl Acad Sci U S A 110: 5010-5015

  • DOI: 10.1073/pnas.1219446110
  • Primary Citation of Related Structures:  
    4HQM, 4HQE

  • PubMed Abstract: 
  • Quinone molecules are intracellular electron-transport carriers, as well as critical intra- and extracellular signals. However, transcriptional regulation of quinone signaling and its molecular basis are poorly understood. Here, we identify a thiol-stress-sensing regulator YodB family transcriptional regulator as a central component of quinone stress response of Staphylococcus aureus, which we have termed the quinone-sensing and response repressor (QsrR) ...

    Quinone molecules are intracellular electron-transport carriers, as well as critical intra- and extracellular signals. However, transcriptional regulation of quinone signaling and its molecular basis are poorly understood. Here, we identify a thiol-stress-sensing regulator YodB family transcriptional regulator as a central component of quinone stress response of Staphylococcus aureus, which we have termed the quinone-sensing and response repressor (QsrR). We also identify and confirm an unprecedented quinone-sensing mechanism based on the S-quinonization of the essential residue Cys-5. Structural characterizations of the QsrR-DNA and QsrR-menadione complexes further reveal that the covalent association of menadione directly leads to the release of QsrR from operator DNA following a 10° rigid-body rotation as well as a 9-Å elongation between the dimeric subunits. The molecular level characterization of this quinone-sensing transcriptional regulator provides critical insights into quinone-mediated gene regulation in human pathogens.


    Organizational Affiliation

    Department of Chemistry, The University of Chicago, Chicago, IL 60637, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcriptional regulator QsrRA, B115Staphylococcus aureusMutation(s): 0 
Gene Names: SAV2123
UniProt
Find proteins for A0A0H3JWI0 (Staphylococcus aureus (strain Mu50 / ATCC 700699))
Explore A0A0H3JWI0 
Go to UniProtKB:  A0A0H3JWI0
Protein Feature View
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  • Reference Sequence
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  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*GP*GP*TP*AP*TP*AP*AP*TP*AP*AP*TP*TP*AP*TP*AP*CP*T)-3')C17synthetic construct
    Protein Feature View
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    • Reference Sequence
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*AP*GP*TP*AP*TP*AP*AP*TP*TP*AP*TP*TP*AP*TP*AP*CP*C)-3')D17synthetic construct
      Protein Feature View
      Expand
      • Reference Sequence
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.30 Å
      • R-Value Free: 0.260 
      • R-Value Work: 0.205 
      • R-Value Observed: 0.208 
      • Space Group: P 41
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 48.189α = 90
      b = 48.189β = 90
      c = 156.807γ = 90
      Software Package:
      Software NamePurpose
      HKL-2000data collection
      PHASESphasing
      PHENIXrefinement
      HKL-2000data reduction
      HKL-2000data scaling

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      • Deposited Date: 2012-10-25 
      • Released Date: 2013-03-06 
      • Deposition Author(s): He, C., Ji, Q., Zhang, L.

      Revision History  (Full details and data files)

      • Version 1.0: 2013-03-06
        Type: Initial release
      • Version 1.1: 2013-05-22
        Changes: Database references