DNase I footprinting of <i>E</i>. <i>coli csrC</i> DNA by phosphorylated and non-phosphorylated UvrY.

<p>A ³²P-end labeled DNA probe that included both the upstream and downstream putative UvrY binding sites was used for these experiments (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0145035#pone.0145035.g001" target="_blank">Fig 1E</a>). Reactions in all lanes except lanes 1 contained DNase I (0.025U/12.5ul reaction). Reactions in lanes 3–6 and lanes 7–10 contained 0.25, 0.35, 0.5, 0.7 μM of phosphorylated or non-phosphorylated UvrY-His₆, respectively. Lane 2 reaction contained no UvrY. A vertical black bar indicates a protected region, and the sequence corresponding to the protected region is shown in a vertical rectangular box. An alignment of sequences corresponding to the protected regions from DNase I and ChIP-exo results is shown in the horizontal rectangular box. The 18nt-long palindromic sequence and the partially conserved palindromic sequences are marked with broken black lines.