A procedure for the quantitation of relaxed closed circular DNA in the presence of superhelical DNA: an improved fluorometric assay for nicking-closing enzyme.

The procedure described here takes advantage of the recently discovered single-strand-specific endonuclease activity of snake-venom phosphodiesterase to convert supercoiled PM2 DNA (DNA I′), but not relaxed DNA (DNA I′), to open forms of DNA. The DNA I' was quantitated using a fiuorometric method for covalently closed circular DNA (A. R. Morgan and D. E. Pulleyblank, 1974, Biochem. Biophys. Res. Commun.61, 396–403). The percentage of DNA I′ in mixtures of DNAs I and I′ can be determined to ±l%. The procedure was used as an assay for a nicking-closing enzyme activity partially purified from simian virus 40-infected monkey cells. The assay is linear from 0 to 0.4 μg DNA I′ produced and reproducible to ±0.01 μg DNA I′.