title: Selective structural change of bulged-out region of double-stranded RNA containing bulged nucleotides by spermidine.
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 Mg(2+). 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 Mg(2+). 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(Delta5). The binding of NS1-2 peptide to U6-34(Delta5) was inhibited both by spermidine and Mg(2+). The selective structural change of U6-34 by spermidine was confirmed by circular dichroism.
authors.affiliation: Department of Clinical Biochemistry, Graduate School of Pharmaceutical Sciences, Chiba University, 1-8-1 Inohana, Chuo-ku, Chiba 260-8675, Japan.
authors.forename: Kyohei
authors.initials: K
authors.lastname: Higashi
authors.forename: Yusuke
authors.initials: Y
authors.lastname: Terui
authors.forename: Emire
authors.initials: E
authors.lastname: Inomata
authors.forename: Daisuke
authors.initials: D
authors.lastname: Katagiri
authors.forename: Yusuke
authors.initials: Y
authors.lastname: Nomura
authors.forename: Tatsuhiko
authors.initials: T
authors.lastname: Someya
authors.forename: Kazuhiro
authors.initials: K
authors.lastname: Nishimura
authors.forename: Keiko
authors.initials: K
authors.lastname: Kashiwagi
authors.forename: Gota
authors.initials: G
authors.lastname: Kawai
authors.forename: Kazuei
authors.initials: K
authors.lastname: Igarashi
mesh_terms: D001665:Binding Sites; D006801:Humans; D008274:Magnesium / Q000737:chemistry; D019906:Nuclear Magnetic Resonance, Biomolecular; D009690:Nucleic Acid Conformation; D009711:Nucleotides / Q000737:chemistry; D010455:Peptides / Q000737:chemistry; D011485:Protein Binding; D012330:RNA, Double-Stranded / Q000737:chemistry*; D012342:RNA, Small Nuclear / Q000737:chemistry*; D013095:Spermidine / Q000737:chemistry*; D017361:Viral Nonstructural Proteins / Q000737:chemistry
chemical_list: C085820:INS1 protein, influenza virus; D009711:Nucleotides; D010455:Peptides; D012330:RNA, Double-Stranded; D012342:RNA, Small Nuclear; C405486:U6 small nuclear RNA; D017361:Viral Nonstructural Proteins; D008274:Magnesium; D013095:Spermidine