Intercalation of ethidium bromide into a triple-stranded oligonucleotide

Nucleic Acids Res. 1991 Apr 11;19(7):1521-6. doi: 10.1093/nar/19.7.1521.

Abstract

We have examined the ability of a cationic planar chromophore, ethidium bromide, to intercalate into a short, defined triple helix. Using UV absorption, fluorescence spectroscopy and a gel retardation assay we demonstrate that ethidium bromide is able to bind to a triple helix with a lower affinity than to the corresponding duplex. Energy transfer from base triplets to ethidium shows that ethidium is intercalated into the triple helix. The spectroscopic characteristics of ethidium intercalated into a triplex are similar to those observed for intercalation into duplex DNA.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Electrophoresis, Polyacrylamide Gel
  • Energy Transfer
  • Ethidium / chemistry*
  • Intercalating Agents / chemistry*
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Oligodeoxyribonucleotides / chemistry*
  • Spectrometry, Fluorescence
  • Spectrophotometry, Ultraviolet
  • Temperature

Substances

  • Intercalating Agents
  • Oligodeoxyribonucleotides
  • Ethidium