Protein-protein and protein-DNA interactions of sigma70 region 4 involved in transcription activation by lambdacI

J Mol Biol. 2002 Nov 15;324(1):17-34. doi: 10.1016/s0022-2836(02)01043-4.

Abstract

The cI protein of bacteriophage lambda (lambdacI) activates transcription from promoter P(RM) through an acidic patch on the surface of its DNA-binding domain. Genetic evidence suggests that this acidic patch stimulates transcription from P(RM) through contact with the C-terminal domain (region 4) of the sigma(70) subunit of Escherichia coli RNA polymerase. Here, we identify two basic residues in region 4 of sigma(70) that are critical for lambdacI-mediated activation of transcription from P(RM). On the basis of structural modeling, we propose that one of these sigma(70) residues, K593, facilitates the interaction between lambdacI and region 4 of sigma(70) by inducing a bend in the DNA upstream of the -35 element, whereas the other, R588, interacts directly with a critical acidic residue within the activating patch of lambdacI. Residue R588 of sigma(70) has been shown to play an important role in promoter recognition; our findings suggest that the R588 side-chain has a dual function at P(RM), facilitating the interaction of region 4 with the promoter -35 element and participating directly in the protein-protein interaction with lambdacI.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Amino Acid Substitution
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism
  • Bacteriophage lambda / genetics
  • Binding Sites
  • DNA-Binding Proteins / chemistry
  • DNA-Binding Proteins / genetics
  • DNA-Binding Proteins / metabolism*
  • DNA-Directed RNA Polymerases / genetics
  • DNA-Directed RNA Polymerases / metabolism*
  • Kinetics
  • Models, Molecular
  • Molecular Biology / methods
  • Molecular Sequence Data
  • Promoter Regions, Genetic
  • Protein Conformation
  • Repressor Proteins / chemistry
  • Repressor Proteins / genetics
  • Repressor Proteins / metabolism*
  • Sigma Factor / genetics
  • Sigma Factor / metabolism*
  • Thermus / genetics
  • Transcriptional Activation
  • Viral Proteins
  • Viral Regulatory and Accessory Proteins

Substances

  • Bacterial Proteins
  • DNA-Binding Proteins
  • Repressor Proteins
  • Sigma Factor
  • Viral Proteins
  • Viral Regulatory and Accessory Proteins
  • phage repressor proteins
  • RNA polymerase sigma 70
  • DNA-Directed RNA Polymerases