Using gel mobility and analytical ultracentrifugation, it was shown that Netropsin binding to DNA increases the twist per base by similar to 9? per molecule bound.
2.
Thus, it removes supercoils when interacting with positively supercoiled DNA and introduces ( additional ) negative supercoils when binding to relaxed or negatively supercoiled DNA . Netropsin's effect on supercoiled DNA was observed in detail on single molecules using a magnetic tweezers.
3.
Puzzlingly, while the structure of kedarcidin chromophore is most closely related to that of chelatively bind the naphthoic acid group of kedarcidin chromophore and thus lessen its affinity for DNA . Competition experiments with netropsin, a known binder of the DNA minor groove, indicate that kedarcidin likely binds the minor groove as well.
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