Kinetic modeling of ace operon genetic regulation in Escherichia coli

J Bioinform Comput Biol. 2008 Oct;6(5):933-59. doi: 10.1142/s0219720008003771.

Abstract

A family of kinetic models has been developed that takes into account available experimental information on the regulation of ace operon expression in Escherichia coli. This has allowed us to study and analyze possible versions of regulation of the ace operon and to test their possibilities. Based on literature analysis, we found that there is an ambiguity of properties of IclR (main repressor of ace operon). The main aspect of this ambiguity are two different forms of IclR purified from E. coli K strain and different coeffector sets for IclR purified from E. coli K and B strains. It has been shown that the full-length form of IclR is physiologically relevant and that IclR truncation is a result of purification of the protein from E. coli K strains. We also found that the IclR protein purified from E. coli B strain carries two coeffector binding sites. Using model-developed levels of steady state aceBAK expression against physiological ranges of coeffectors, concentration has been predicted.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computer Simulation
  • Escherichia coli / genetics*
  • Escherichia coli Proteins / genetics*
  • Gene Expression Regulation, Bacterial / genetics*
  • Kinetics
  • Models, Genetic*
  • Operon / genetics*
  • Repressor Proteins / genetics*
  • Transcriptional Activation / genetics*

Substances

  • Escherichia coli Proteins
  • Repressor Proteins
  • IclR protein, E coli