Introduction of cationic charge into DNA near the major groove edge of a guanine x cytosine base pair: characterization of oligodeoxynucleotides substituted with 7-aminomethyl-7-deaza-2'-deoxyguanosine

J Am Chem Soc. 2009 Sep 2;131(34):12068-9. doi: 10.1021/ja904930p.

Abstract

The replacement of the 7-N atom on guanine (G) with a C-H to give 7-deazaguanine (c(7)G) alters the electronic properties of the heterocyclic base and eliminates a potential major groove cation binding site, which affects the organization of salts and water in the major groove. This has a destabilizing effect on DNA. We report herein the characterization of DNA oligomers containing 7-(aminomethyl)-7-deazaguanine (1) residues using a variety of spectroscopic and thermodynamic approaches. 1 is an intramolecular model for the major groove binding of cations and basic amino acid residues to G. In contrast to c(7)G, the tethering of a cation in the major groove using 1 affords DNA that is as, or more, stable than the corresponding unmodified DNA. The stabilization is associated with the folding enthalpy and hydration.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Base Pairing*
  • Base Sequence
  • Cytosine*
  • DNA / chemistry*
  • DNA / genetics
  • Deoxyguanosine / chemistry*
  • Guanine*
  • Nucleoside Q / analogs & derivatives*
  • Nucleoside Q / chemistry
  • Oligodeoxyribonucleotides / chemistry*
  • Oligodeoxyribonucleotides / genetics
  • Temperature
  • Thermodynamics

Substances

  • 7-aminomethyl-7-deaza-2'-deoxyguanosine
  • Oligodeoxyribonucleotides
  • Nucleoside Q
  • Guanine
  • Cytosine
  • DNA
  • Deoxyguanosine