Thiazole orange as the fluorescent intercalator in a high resolution fid assay for determining DNA binding affinity and sequence selectivity of small molecules

Bioorg Med Chem. 2001 Sep;9(9):2511-8. doi: 10.1016/s0968-0896(01)00243-7.

Abstract

The viability of using thiazole orange as an alternative to ethidium bromide in a fluorescent intercalator displacement (FID) assay is explored by profiling the DNA binding affinity and sequence selectivity of netropsin. Utilizing a library of hairpin deoxyoligonucleotides containing all possible four base-pair sequences, the method provides a high resolution profile of the DNA binding properties of small molecules in a high throughput format.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Anti-Bacterial Agents / metabolism
  • Benzothiazoles
  • Binding, Competitive
  • DNA / metabolism*
  • Ethidium / chemistry
  • Ethidium / standards
  • Fluorescent Dyes / chemistry
  • Fluorescent Dyes / standards*
  • Gene Library
  • Intercalating Agents / chemistry*
  • Intercalating Agents / standards
  • Ligands
  • Microchemistry
  • Netropsin / metabolism
  • Oligodeoxyribonucleotides / metabolism
  • Quinolines
  • Spectrometry, Fluorescence
  • Thiazoles / chemistry*
  • Thiazoles / standards
  • Titrimetry

Substances

  • Anti-Bacterial Agents
  • Benzothiazoles
  • Fluorescent Dyes
  • Intercalating Agents
  • Ligands
  • Oligodeoxyribonucleotides
  • Quinolines
  • Thiazoles
  • thiazole orange
  • Netropsin
  • DNA
  • Ethidium