Exploring a DNA Sequence for the Three-Dimensional Structure Determination of a Silver(I)-Mediated C-C Base Pair in a DNA Duplex by 1H NMR Spectroscopy

Takenori Dairaku, Kyoko Furuita, Hajime Sato, Yoshinori Kondo, Chojiro Kojima, Akira Ono, Yoshiyuki Tanaka

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

Recently, we discovered novel silver(I)-mediated cytosine-cytosine base pair (C-AgI-C) in DNA duplexes. To understand the properties of these base pairs, we searched for a DNA sequence that can be used in NMR structure determination. After extensive sequence optimizations, a non-symmetric 15-base-paired DNA duplex with a single C-AgI-C base pair flanked by 14 A-T base pairs was selected. In spite of its challenging length for NMR measurements (30 independent residues) with small sequence variation, we could assign most non-exchangeable protons (254 out of 270) and imino protons for structure determination.

Original languageEnglish
Pages (from-to)877-900
Number of pages24
JournalNucleosides, Nucleotides and Nucleic Acids
Volume34
Issue number12
DOIs
Publication statusPublished - 2015 Dec 2

Keywords

  • H NMR spectroscopy
  • metallo-DNA
  • metallo-base pair

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Medicine
  • Genetics

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