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. 2006 Mar;72(3):1749–1758. doi: 10.1128/AEM.72.3.1749-1758.2006

FIG. 4.

FIG. 4.

DNase I footprinting of BenM, CatM, and CatM(V158M) at benA. DNase I-cleaved DNA was labeled on the antisense (A and B) or sense (C and D) strand of the benA promoter region. In lanes 2 to 5, a regulatory protein (0.15 μM) was present in the cleavage reaction, as indicated below panels A to D. The presence (+) or absence (−) of the effectors benzoate (Ben) and muconate (Muc) at a concentration of 1 mM in each reaction mixture is indicated. The binding sites labeled 1 to 3 are discussed in the text, and their positions are shown relative to the DNA sequence of the region (E). Nucleotides protected from DNase I digestion in both the absence and presence of inducers are indicated by solid brackets immediately above or below the benA sequence. Nucleotides protected from DNase I cleavage only in the absence of inducers are indicated by dotted brackets. Triangles and positions labeled A to D show sites that were hypersensitive to DNase I digestion. One hypersensitive site (site D) was evident in reactions with CatM but not BenM.