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Updated: Jul 9, 2026

Parallel High Throughput Single Molecule Kinetic Assay for Site-Specific DNA Cleavage
Published on: May 6, 2020
Sequence-specific recognition of double-stranded DNA by synthetic minor groove binder conjugates. toward the
Alexandre S Boutorine1, Ludovic Halby, Philippe Simon
1Muséum National d'Histoire Naturelle, INSERM U565, Paris, France. alexandre.boutorine@mnhn.fr
Abstract:
Bis-conjugates of hairpin N-methylpyrrole/N-methylimidazole oligocarboxamide minor groove binders (MGB) possessing enhanced affinity and sequence-specificity for dsDNA were synthesized. Two hairpin MGBs were connected by their N-termini via an aminodiacetate linker. The binding of bis-MGB conjugates to the target DNA was studied by gel mobility retardation, footprinting, and circular dichroism; their affinity and binding mode in the DNA minor groove were determined. In order to functionalize the bis-MGB conjugates, DNA-cleaving agents such as phenanthroline or bipyridine were attached. Effective site-specific cleavage of target DNA in the presence of Cu(2+) ions was observed.
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