Linker chain effect of ferrocenylnaphthalene diimide derivatives on a tetraplex DNA binding - DNA

Linker chain effect of ferrocenylnaphthalene diimide derivatives on a tetraplex DNA binding
2006
Shinobu Sato1, Hiroki Kondo1 and Shigeori Takenaka2
1 Department of Bioscience and Bioinformatics, Faculty of Computer Science and Systems Engineering, 680-4 Kawazu, Iizuka-shi, Fukuoka 820-8502, JAPAN, 2 Department of Materials Science, Faculty of Engineering, Kyushu Institute of Technology, 1-1 Sensui-cyo, Tobata-ku, Kitakyushu-shi, Fukuoka 804-8550, JAPAN
Nucleic Acids Symposium Series 2006
Spectrophotometric binding studies of a series of the naphthalene diimide derivatives, 1 - 7, carrying different chains with a human telomere oligonucleotide, d(TTAGG)4 was carried out in 0.1 M AcOK-AcOH buffer (pH 5.6) and 0.1 M KCl. Under this condition, this DNA could exist as the mixture of two-type tetraplex structures and these derivatives could bind to this DNA with strong affinity of 106 M-1. The effect of the linker chain is not so large in those binding affinity, but the ligand 5 having piperazine skeleton in the linker chain had relative higher affinity for this tetraplex DNA than other derivatives. Large hypochromic effect of these derivatives upon binding to the tetraplex DNA suggested that the binding mode of these derivatives might contribute the stacking interaction between the naphthalene diimide and guanine tetraplex planes.
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