An RNA aptamer containing two binding sites against the HCV minus-IRES domain I |
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Authors: | Konno Keisuke Iizuka Mana Fujita Syusuke Nishikawa Satoshi Hasegawa Tsunemi Fukuda Kotaro |
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Affiliation: | Department of Material and Biological Chemistry, Faculty of Science, Yamagata University, Yamagata, Japan. |
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Abstract: | The higher order structure of HCV (-)IRES containing five stem-loop structures (domain I) is essential for HCV replication because the viral RNA-dependent RNA polymerase, NS5B, recognizes it as the initiation site for plus-strand synthesis. To inhibit a de novo synthesis of plus-strand RNA molecules, in vitro selection against (-)IRES domain I was performed. One of the obtained aptamers, AP30, contained two consensus sequences within a random sequence region. Two consensus sequences form two apical loops and mutational analysis showed that both sequences were essential for binding to the target and for inhibiting NS5B-mediated RNA synthesis in vitro. |
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