Figure 6.

Potassium permanganate footprinting to detect the sensitivity of the thymine base in the recognition sequence to permanganate oxidation upon KpnI MTase binding. The labeled oligonucleotide was incubated with 250 nM MTase and treated with potassium permanganate, and the cleavage products were analyzed as described in Materials and Methods. (A) and (B) refer to 5′ end labeling of the top and bottom strand. F and C indicate the permanganate oxidative cleavage pattern obtained in the presence and absence of MTase, respectively. The arrow indicates the thymine residue within the recognition sequence.