New method for scanning of single-nucleotide polymorphisms (SNPs): recognition of guanine-guanine mismatches by dimeric naphthyridine.
Dimeric naphthyridine was designed and synthesized as a novel ligand that specifically binds to G-G mismatch, one of four SNP types. In the presence of dimeric naphthyridine, CD spectra of the G-G mismatch containing duplex noticeably changed, being accompanied by the induced CD at 300-350 nm, whereas no CD spectral change was observed for normal duplex. DNaseI footprinting titration indicated a selective binding of dimeric naphthyridine to the G-G mismatch with a dissociation constant of 53 nM.
Sando
S
S
Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University, Kyoto 606-8501, Japan.
Nakatani
K
K
Saito
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I
D020137:Base Pair Mismatch; D001483:Base Sequence; D001665:Binding Sites; D002942:Circular Dichroism; D004252:DNA Mutational Analysis; D006147:Guanine / Q000737:chemistry*; D009287:Naphthyridines; D009692:Nucleic Acid Heteroduplexes / Q000737:chemistry; D020641:Polymorphism, Single Nucleotide
D009287:Naphthyridines; D009692:Nucleic Acid Heteroduplexes; D006147:Guanine