Selective structural change of bulged-out region of double-stranded RNA containing bulged nucleotides by spermidine |
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Authors: | Higashi Kyohei Terui Yusuke Inomata Emire Katagiri Daisuke Nomura Yusuke Someya Tatsuhiko Nishimura Kazuhiro Kashiwagi Keiko Kawai Gota Igarashi Kazuei |
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Affiliation: | a Department of Clinical Biochemistry, Graduate School of Pharmaceutical Sciences, Chiba University, 1-8-1 Inohana, Chuo-ku, Chiba 260-8675, Japan b Faculty of Pharmacy, Chiba Institute of Science, 15-8 Shiomi-cho, Choshi-shi, Chiba 288-0025, Japan c Faculty of Engineering, Chiba Institute of Technology, 2-17-1 Tsudanuma, Narashino-shi, Chiba 275-8588, Japan d Amine Pharma Research Institute, Innovation Plaza at Chiba University, 1-8-15 Inohana, Chuo-ku, Chiba 260-0856, Japan |
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Abstract: | Polyamines are essential for cell growth due to effects mainly at the level of translation. These effects likely involve a structural change, induced by polyamines, of the bulged-out region of double-stranded RNA that is different from changes induced by Mg2+. Structural changes were studied using U6-34, a model RNA of U6 small nuclear RNA containing bulged nucleotides. Binding of NS1-2 peptide derived from the RNA binding site of NS1 protein, to U6-34 was inhibited by spermidine but not by Mg2+. A selective conformational change of the bases in the bulged-out region of U6-34 induced by spermidine was observed by NMR. The selective effect of spermidine was lost when the bulged-out region of U6-34 was removed in U6-34(Δ5). The binding of NS1-2 peptide to U6-34(Δ5) was inhibited both by spermidine and Mg2+. The selective structural change of U6-34 by spermidine was confirmed by circular dichroism. |
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Keywords: | SPD, spermidine HSQC, hetero single quantum coherence spectroscopy HOHAHA, homonuclear Hartman-Hahn spectroscopy CD, circular dichroism NS1 protein, non-structural protein 1 U6-34, the NS1 binding region of U6 small nuclear RNA |
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