title: NMR structural analysis of the G.G mismatch DNA complexed with naphthyridine-dimer.
abstract: Naphthyridine-dimer (ND) specifically recognizes G.G mismatch DNA (Figure 1). However, its detailed recognition mechanism is not clear. Here a DNA oligomer d(CTAACGGAATG)/d(CATTCGGTTAA) complexed with ND was studied by NMR. The stoichiometry of DNA to ND was determined to be 1:2 at NMR concentration (2.5 mM). Proton resonances were completely assigned including H5' and H5'' using 1H-1H and 1H-13C 2D spectra of the complex. These spectra showed that four naphthyridine rings are staked in the helix and form hydrogen bonds with the four G residues in CGG/CGG region. These results indicate ND can specifically recognize the CGG/CGG sequence.
authors.affiliation: Graduate School of Biological Science, Nara Institute of Science and Technology, Nara 630-0101, Japan.
authors.forename: Makoto
authors.initials: M
authors.lastname: Nomura
authors.forename: Shinya
authors.initials: S
authors.lastname: Hagihara
authors.forename: Yuki
authors.initials: Y
authors.lastname: Goto
authors.forename: Kazuhiko
authors.initials: K
authors.lastname: Nakatani
authors.forename: Chojiro
authors.initials: C
authors.lastname: Kojima
mesh_terms: D020137:Base Pair Mismatch; D004247:DNA / Q000737:chemistry; D006147:Guanine / Q000737:chemistry*; D009287:Naphthyridines / Q000737:chemistry*; D019906:Nuclear Magnetic Resonance, Biomolecular
chemical_list: D009287:Naphthyridines; C520211:bis((7-methylnaphthyridin-2-yl)carbamoylethyl)amine; D006147:Guanine; D004247:DNA