NDLI: Construction and characterization of Cy3- or Cy5-conjugated hairpin pyrrole–imidazole polyamides binding to DNA in the nucleosome

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Biomaterials Science Vol - 2 Issue - 2

Biomaterials Science Vol -1

Construction and characterization of Cy3- or Cy5-conjugated hairpin pyrrole–imidazole polyamides binding to DNA in the nucleosome

Content Provider	Royal Society of Chemistry (RSC)
Author	Yokota, Hiroaki Harada, Yoshie Han, Yong-Woon Kashiwazaki, Gengo Hashiya, Kaori Tsunaka, Yasuo Matsumoto, Tomoko Morinaga, Hironobu Sugiyama, Hiroshi Bando, Toshikazu
Copyright Year	2014
Abstract	Sequence-specific DNA-binding modules, N-methylpyrrole (Py)-N-methylimidazole-(Im) polyamides have been recently conjugated with fluorophores, and some of these conjugates could be used for the detection of specific DNA sequences. In this study, we synthesized two Py–Im polyamides 1 and 2, which interact with the 145-bp nucleosome positioning sequence 601. We conjugated the cyanine dye Cy3 or Cy5 with 1 or 2. In the absence of target DNA, the fluorescent conjugate of a Py–Im polyamide had lower fluorescence intensity compared with Cy3 or Cy5 alone. In the presence of either the target DNA or the nucleosome, the fluorescence intensity of the conjugates increased. Furthermore, we observed a Förster resonance energy transfer between the Cy3–Py–Im polyamide and the Cy5–Py–Im polyamide on the nucleosome. These results open up the possibilities that fluorescent conjugates of Py–Im polyamides can be used for characterization of the dynamic interactions within protein–DNA complexes.
Starting Page	297
Ending Page	307
Page Count	11
File Format	HTM / HTML PDF
ISSN	20474830
Volume Number	2
Issue Number	3
Journal	Biomaterials Science
DOI	10.1039/c3bm60202h
Language	English
Publisher	Royal Society of Chemistry
Access Restriction	Open
Subject Keyword	Förster resonance energy transfer N-Methyl-2-pyrrolidone DNA Nucleosome Gene regulatory network Polyamide Fluorescence Py Cyanine
Content Type	Text
Resource Type	Article
Subject	Materials Science Biomedical Engineering

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Construction and characterization of Cy3- or Cy5-conjugated hairpin pyrrole–imidazole polyamides binding to DNA in the nucleosome

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