FIG. 4.

chxR promoter region and putative ChxR binding motif. (A) The five putative binding sites (underlined and identified as DR5, DR4, DR3, DR2, and DR1) were derived from a previously reported DNase protection assay (28). A sixth recognition site (DR6) was later identified within the chxR promoter. Transcriptional start site and σ⁶⁶ holoenzyme promoter element are indicated by +1 and −35/−10, respectively (28) (B) Visual inspection of the six binding sites in the chxR promoter suggested a conserved direct repeat sequence. The two recognition motifs within the six DR sites were aligned. (C) A consensus sequence was generated using Weblogo (12) with each half site from the sequences in Fig. 4B. (D) The recognition sequence and linker length is listed (W = A/T, H = C/A/T, and N = G/C/A/T).