Figure 5
HpaR1 and RNA polymerase bind to 31 and 70 nucleotides in the gumB promoter region of Xcc strain 8004, respectively, as revealed by the dye primer-based DNase I footprint assays.
Electropherograms show the protection pattern of the gumB promoter after digestion with DNase I following incubation in the absence (A) or presence (B) of 10 μM His6-HpaR1. ROI, region of interest. (C) The gumB promoter sequence of strain 8004 with a summary of the DNase I footprint assay results. The transcription initiation site (TIS) determined in strain 8004 (this work) and strain B-145911 is indicated by the solid-line square and dash-line square, respectively. The −35 and −10 elements predicted in strain 8004 (this work) and strain B-145911 are indicated by a solid-line rectangle and dash-line rectangle, respectively. The HpaR1 binding sequence (HBS) is highlighted in grey background. The dyad symmetrical sequence is indicated by arrows. The RNA polymerase binding region is underlined, which was also determined by a dye primer-based DNase I footprint assay (Supplementary Fig. 2).
