Identification of CRP-binding motif in promoter region of <i>dnaK</i> operon by EMSA.

<p>A) Sequence of the 5'-UTR of <i>dnaK</i> operon. The putative ribosome-binding site (RBS), and the translation start site (TSS) are boldfaced and underlined. The putative CRP-binding sites are shaded, whereas the SigH-recognition sequence is shown in italics. Positions and directions of the primers that were used for PCR amplification of DNA fragments shown in (B) are marked by horizontal arrows. B) Interaction of CRP^M with the 5'-UTR of <i>dnaK</i> operon. Biotin-labeled <i>dnaK</i> promoter fragments of various lengths, as shown, were incubated with CRP^M in the presence of 1 mM cAMP before separation of DNA-protein complexes by gel electrophoresis. Reaction mixtures containing promoter fragments but lacking the CRP^M were resolved in adjacent lanes as controls. C) Effect of cAMP on complex formation between CRP^M and <i>dnaK</i> promoter. Purified CRP^M pre-incubated with or without 1 mM cAMP for 30 min on ice, was subject to binding with full length <i>dnaK</i> promoter fragment (<i>dnaK</i>-346) for 15 min at 37°C before separation of CRP^M–<i>dnaK</i> complexes by gel electrophoresis. Complex, CRP^M–<i>dnaK</i> complex; Free, unbound DNA fragment.