title: Exploring a DNA Sequence for the Three-Dimensional Structure Determination of a Silver(I)-Mediated C-C Base Pair in a DNA Duplex By (1)H NMR Spectroscopy.
abstract: Recently, we discovered novel silver(I)-mediated cytosine-cytosine base pair (C-Ag(I)-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-Ag(I)-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.
authors.affiliation: a Graduate School of Pharmaceutical Sciences, Tohoku University, Aobayama, Aoba-ku , Sendai , Miyagi , Japan.
authors.forename: Takenori
authors.initials: T
authors.lastname: Dairaku
authors.affiliation: b Institute for Protein Research, Osaka University , Suita , Osaka , Japan.
authors.forename: Kyoko
authors.initials: K
authors.lastname: Furuita
authors.affiliation: c Bruker BioSpin K.K. , Yokohama , Kanagawa , Japan.
authors.forename: Hajime
authors.initials: H
authors.lastname: Sato
authors.affiliation: a Graduate School of Pharmaceutical Sciences, Tohoku University, Aobayama, Aoba-ku , Sendai , Miyagi , Japan.
authors.forename: Yoshinori
authors.initials: Y
authors.lastname: Kondo
authors.affiliation: b Institute for Protein Research, Osaka University , Suita , Osaka , Japan.
authors.forename: Chojiro
authors.initials: C
authors.lastname: Kojima
authors.affiliation: d Department of Material & Life Chemistry , Kangawa University, Kanagawa-ku , Yokohama , Kanagawa , Japan.
authors.forename: Akira
authors.initials: A
authors.lastname: Ono
authors.affiliation: a Graduate School of Pharmaceutical Sciences, Tohoku University, Aobayama, Aoba-ku , Sendai , Miyagi , Japan.|e Laboratory of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Tokushima Bunri University , Yamashiro-cho , Tokushima , Japan.
authors.forename: Yoshiyuki
authors.initials: Y
authors.lastname: Tanaka
mesh_terms: D020029:Base Pairing / Q000235:genetics; D004247:DNA / Q000737:chemistry*; D006147:Guanine / Q000737:chemistry; D009682:Magnetic Resonance Spectroscopy; D009690:Nucleic Acid Conformation; D009838:Oligodeoxyribonucleotides / Q000737:chemistry* / Q000235:genetics; D017422:Sequence Analysis, DNA; D012834:Silver / Q000737:chemistry
chemical_list: D009838:Oligodeoxyribonucleotides; D012834:Silver; D006147:Guanine; D004247:DNA
keywords: 1H NMR spectroscopy; metallo-DNA; metallo-base pair