Study by (23)Na-NMR, (1)H-NMR, and ultraviolet spectroscopy of the thermal stability of an 11-basepair oligonucleotide

Biophys J. 2000 Feb;78(2):1059-69. doi: 10.1016/S0006-3495(00)76664-1.

Abstract

23Na-NMR, (1)H-NMR, and ultraviolet (UV) spectroscopy have been used to study the thermal stability of the double helix structure of an 11-basepair oligonucleotide. The denaturation curves obtained by (23)Na-NMR and UV are analyzed using a two-state model. The melting temperature and DeltaH(0) obtained are identical within experimental error, suggesting that modifications in the ionic atmosphere, probed by (23)Na-NMR, and the modifications in the basepair stacking, probed by UV, occur at the same temperature. Additional dynamical information on the denaturation process has been obtained by (1)H-NMR: slow exchange is observed between the thymine methyl resonances, and the disappearance of imino protons shows that a single basepair opening does not contribute significantly to proton exchange.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Pairing
  • DNA / chemistry*
  • Magnetic Resonance Spectroscopy*
  • Nucleic Acid Conformation
  • Nucleic Acid Denaturation*
  • Oligonucleotides / chemistry*
  • Protons
  • Spectrophotometry, Ultraviolet*
  • Temperature

Substances

  • Oligonucleotides
  • Protons
  • DNA