Studying the Potassium-Induced G-Quadruplex DNA Folding Process Using Microscale Thermophoresis

Biochemistry. 2019 Sep 24;58(38):3955-3959. doi: 10.1021/acs.biochem.9b00447. Epub 2019 Sep 9.

Abstract

Guanine (G) quadruplexes (G4s) can be formed by G-rich sequences when stabilized by the binding of cations (typically K+ or Na+) and play an essential role in replication, recombination, transcription, and telomere maintenance. Understanding of the G4 folding process is crucial for determining their cellular functions. However, G4-K+ interactions and folding pathways are still not well understood. By using human telomeric G4 (hTG4) as an example, two binding states corresponding to two K+ cations binding to hTG4 were distinguished clearly and fitted precisely. The basic binding parameters during G4-K+ interactions were measured and calculated by taking advantage of microscale thermophoresis (MST), which monitors the changes in charge and size at the same time. The G-hairpin and G-triplex have been suggested as intermediates during G4 folding and unfolding. We further analyzed the equilibrium dissociation constants of 10 possible folding intermediates using MST; thus, the energetically favorable folding/unfolding pathways were proposed. The results might not only shed new light on G4-K+ interactions and G4 folding pathways but also provide an example for experimentally studying DNA-ion interactions.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Cations, Monovalent / chemistry
  • Circular Dichroism
  • DNA / chemistry*
  • Fluoresceins / chemistry
  • Fluorescent Dyes / chemistry
  • G-Quadruplexes*
  • Humans
  • Kinetics
  • Oligonucleotides / chemistry
  • Potassium / chemistry*
  • Staining and Labeling
  • Telomere / chemistry*
  • Thermodynamics

Substances

  • Cations, Monovalent
  • Fluoresceins
  • Fluorescent Dyes
  • Oligonucleotides
  • 6-carboxyfluorescein
  • DNA
  • Potassium