Related Experiment Video
Updated: Jul 4, 2026

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines
Published on: May 12, 2023
DNA binding by analogues of the bifunctional intercalator TANDEM
Andrew J Hampshire1, David A Rusling, Stephanie Bryan
1School of Biological Sciences, University of Southampton, UK.
Abstract:
We have used DNase I footprinting to study the binding strength and DNA sequence selectivity of novel derivatives of the quinoxaline bis-intercalator TANDEM. Replacing the valine residues in the cyclic octadepsipeptide with lysines does not affect the selectivity for TpA but leads to a 50-fold increase in affinity. In contrast, replacing both of the quinoxaline chromophores with naphthalene rings abolishes binding, while changing a single ring decreases the affinity, and footprints are observed at only the best binding sites (especially TATATA). By using fragments with different lengths of [(AT) n ], we demonstrate that these ligands bind best to the center of the longer (AT) n tracts.
Related Concept Videos
Cooperative Binding of Transcription Regulators
Single-Strand DNA Binding Proteins
Inhibitors of Bacterial DNA Synthesis
DNA Base Pairing
Ligand Binding and Linkage
DNA Topoisomerases
Types and Mechanism of action
Topoisomerases are divided into two main types. Type I...

