Co-regulation by bent DNA. Functional substitutions of the integration host factor site at sigma 54-dependent promoter Pu of the upper-TOL operon by intrinsically curved sequences

J Biol Chem. 1994 Sep 9;269(36):22657-62.

Abstract

The role of integration host factor (IHF) in the regulation of the sigma 54-dependent promoter Pu of the TOL plasmid of Pseudomonas putida has been examined. We have selected in vivo insertions of intrinsically curved DNA that restore the responsiveness of an IHF-binding site deletion variant of Pu to the cognate activator of the system, XylR. We found five Pu derivatives which had inserted a core sequence with 6 phased [A]6 tracts, flanked by different lengths of DNA at the location of the former IHF site. They displayed 40-100% of the activity of Pu, were independent of IHF, and maintained the overall geometry of the wild-type promoter. The induction patterns of Pu, compared to those of hybrid promoters, were virtually indistinguishable. This supports the notion that, in native conditions, IHF co-regulates the system by providing a structural aid for promoter architecture and not by interacting directly with the RNA polymerase, as it has been suggested with other known IHF-dependent promoters.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacterial Proteins / metabolism*
  • Base Sequence
  • Cloning, Molecular
  • DNA Primers
  • DNA, Bacterial / chemistry*
  • DNA, Bacterial / metabolism*
  • DNA-Binding Proteins / metabolism
  • Escherichia coli
  • Genotype
  • Integration Host Factors
  • Models, Structural
  • Molecular Sequence Data
  • Nucleic Acid Conformation*
  • Operon*
  • Phenotype
  • Plasmids
  • Polymerase Chain Reaction
  • Promoter Regions, Genetic*
  • Pseudomonas putida / genetics*
  • Pseudomonas putida / metabolism
  • Restriction Mapping
  • Sequence Deletion
  • Sigma Factor / metabolism*

Substances

  • Bacterial Proteins
  • DNA Primers
  • DNA, Bacterial
  • DNA-Binding Proteins
  • Integration Host Factors
  • Sigma Factor
  • integration host factor, Pseudomonas