Hydrogen bond-mediated binding of ligands to a nucleobase at a gap site in a DNA duplex and its use for fluorescence detection of single-nucleotide polymorphisms.

Takehiro Seino, Seiichi Nishizawa, Norio Teramae

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)

Abstract

Here we report on the strong and selective binding of a hydrogen bond-forming ligand, 2-amino-7-methyl-1,8-naphthyridine (AMND), to a nucleobase at a gap site in DNA duplexes. In solutions buffered to pH 7.0 (at 20 degrees C, I = 0.11 M), AMND is found to selectively recognize cytosine (C) base over other nucleotides, and the 1:1 association constant reaches 3.2x10(5) M(-1) when binding to C. The ligand-nucleotide interaction results in significant fluorescence quenching of AMND, which is highly selective to C. These sensing functions of AMND at the gap site are utilized for the development of ligand-based fluorescence assay for SNPs (single-nucleotide polymorphisms) typing.

Original languageEnglish
Pages (from-to)205-206
Number of pages2
JournalNucleic acids symposium series (2004)
Issue number49
DOIs
Publication statusPublished - 2005

ASJC Scopus subject areas

  • Medicine(all)

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