4-(2'-Pyridyl)imidazole as an artificial nucleobase in highly stabilizing Ag(I)-mediated base pairs

J Biol Inorg Chem. 2015 Jul;20(5):895-903. doi: 10.1007/s00775-015-1274-2. Epub 2015 Jun 12.

Abstract

A new artificial nucleoside 2 comprising 4-(2'-pyridyl)imidazole as the nucleobase was devised and incorporated into a series of DNA oligonucleotide duplexes. The propensity of 2 to form metal-mediated homo and hetero base pairs was investigated in various 13mer and 26mer duplexes. The artificial nucleoside readily forms Ag(I)-mediated homo base pairs of the type 2-Ag(I)-2, in which the Ag(I) ion resides in a [2 + 2] coordination environment. In addition, the combination with the previously established imidazole nucleoside 1 leads to the formation of Ag(I)-mediated hetero base pairs (2-Ag(I)-1 and 1-Ag(I)-2) with a [2 + 1] coordination environment. With an increase in the melting temperature of ΔT m = 21.8 °C upon the formation of a Ag(I)-mediated base pair, the 2-Ag(I)-1 pair with the 13mer duplex is the most stabilizing Ag(I)-mediated base pair so far. Generally, the impact of the formation of a metal-mediated base pair on the properties of the DNA duplex was found to be significantly more prominent for shorter, intrinsically less stable duplexes.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Pairing*
  • DNA / chemistry*
  • Imidazoles / chemical synthesis
  • Imidazoles / chemistry*
  • Models, Molecular
  • Molecular Structure
  • Organometallic Compounds / chemistry*
  • Pyridines / chemical synthesis
  • Pyridines / chemistry*
  • Silver / chemistry*
  • Temperature

Substances

  • Imidazoles
  • Organometallic Compounds
  • Pyridines
  • Silver
  • DNA