Figure 8

Comparison of experimentally determined and predicted SugR binding sites located upstream of the coding regions of ptsI, cg2118, ptsH, ptsG, and ptsS and construction of a consensus sequence. A) Predicted binding motifs were determined by sequence comparisons of proven motifA and motifB to the DNA fragments showing positive SugR binding in the EMSA studies. Proven and predicted motifs are separated by a horizontal, dashed line. Boxed letters in the experimentally proven motifs A and B and the putative SugR binding sequences located upstream the coding regions of ptsH, ptsG, and ptsS denote identical nucleotides in all sequences. Distances to the according translation starts (TL) are indicated. B) A frequency plot of the deduced consensus sequence of all motifs is constructed by means of the WebLogo tool. The overall height of each stack of letters indicates the sequence conservation at each position of the 21-bp motif, whereas the height of each symbol within the stack reflects the relative frequency of the corresponding nucleotide at that position.