Transcription activation by the DNA-binding domain of the AraC family protein RhaS in the absence of its effector-binding domain

J Bacteriol. 2007 Jul;189(14):4984-93. doi: 10.1128/JB.00530-07. Epub 2007 May 18.

Abstract

The Escherichia coli L-rhamnose-responsive transcription activators RhaS and RhaR both consist of two domains, a C-terminal DNA-binding domain and an N-terminal dimerization domain. Both function as dimers and only activate transcription in the presence of L-rhamnose. Here, we examined the ability of the DNA-binding domains of RhaS (RhaS-CTD) and RhaR (RhaR-CTD) to bind to DNA and activate transcription. RhaS-CTD and RhaR-CTD were both shown by DNase I footprinting to be capable of binding specifically to the appropriate DNA sites. In vivo as well as in vitro transcription assays showed that RhaS-CTD could activate transcription to high levels, whereas RhaR-CTD was capable of only very low levels of transcription activation. As expected, RhaS-CTD did not require the presence of L-rhamnose to activate transcription. The upstream half-site at rhaBAD and the downstream half-site at rhaT were found to be the strongest of the known RhaS half-sites, and a new putative RhaS half-site with comparable strength to known sites was identified. Given that cyclic AMP receptor protein (CRP), the second activator required for full rhaBAD expression, cannot activate rhaBAD expression in a DeltarhaS strain, it was of interest to test whether CRP could activate transcription in combination with RhaS-CTD. We found that RhaS-CTD allowed significant activation by CRP, both in vivo and in vitro, although full-length RhaS allowed somewhat greater CRP activation. We conclude that RhaS-CTD contains all of the determinants necessary for transcription activation by RhaS.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • AraC Transcription Factor / genetics
  • AraC Transcription Factor / metabolism
  • Base Sequence
  • Binding Sites / genetics
  • Blotting, Western
  • Cyclic AMP Receptor Protein / genetics
  • Cyclic AMP Receptor Protein / metabolism
  • DNA Footprinting / methods
  • DNA-Binding Proteins / genetics*
  • DNA-Binding Proteins / metabolism
  • Escherichia coli Proteins / genetics*
  • Escherichia coli Proteins / metabolism
  • Molecular Sequence Data
  • Plasmids / genetics
  • Protein Binding
  • Regulon / genetics
  • Rhamnose / metabolism
  • Trans-Activators / genetics
  • Trans-Activators / metabolism
  • Transcriptional Activation*

Substances

  • AraC Transcription Factor
  • AraC protein, E coli
  • Cyclic AMP Receptor Protein
  • DNA-Binding Proteins
  • Escherichia coli Proteins
  • RhaR protein, E coli
  • RhaS protein, E coli
  • Trans-Activators
  • Rhamnose