Fig. 3: Cleavage assay with E. coli DNA gyrase. | Nature Communications

Fig. 3: Cleavage assay with E. coli DNA gyrase.

From: Potent DNA gyrase inhibitors bind asymmetrically to their target using symmetrical bifurcated halogen bonds

Fig. 3

Cleavage complexes formed by 4–6 were trapped with SDS (see “Methods”) before treatment with Proteinase K. The cleaved plasmids were resolved by agarose gel electrophoresis. a Gel image for 6; increasing amount of compound results in increasing nicked DNA being trapped. No increase in linear plasmid was observed. b The gel for compound 6 and similar gels for 4 and 5 (Supplementary Fig. 8) were quantified by densitometry. The proportion of nicked to the total amount of DNA in the lane was plotted against the compound concentration in b. For each compound, the data were fitted to the Hill equation. The EC50 parameter for the best fit is the measured CC50. The cleavage assays were reproduced three times, while the no enzyme control was reproduced twice with similar results. Uncropped versions of gel images are available as Supplementary Figs. 22 and 23.

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