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Figure 5. Fur model scan and DNase I footprints of the fhuF promoter region. (A) The promoter region was scanned with the 24-site M9 model, and two clusters of sequence walkers (Ri > 0 bits) were detected, with each closely corresponding to one of the two Fur protected regions (gray bars, fhuF1 and fhuF2). The solid black arrow with two tails above the DNA at coordinates 4603717 and 4603716 indicates the fhuF transcription starts. The open arrows starting at coordinates 4603827 and 4603686 indicate the yjjZ and fhuF translation starts, respectively. The saturation of colored rectangles behind each sequence walker is proportional to the information of that site. For reference, colored lines cycle with 6-base periodicity. (B) DNase I footprinting on the fhuF promoter by Fur showed two regions protected by the protein, marked in the figure by brackets. The high-affinity and low-affinity regions are marked with H and L, respectively. The footprinting samples were run in parallel with Maxam–Gilbert sequencing ladders (marked by G/A).
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