title: Hairpin structure of an RNA 28-mer, which contains a sequence of the enzyme component of a hammerhead ribozyme system: evidence for tandem G:A pairs that are not of side-by-side type.
abstract: An RNA 28-mer (Rz28) was obtained as a major product by in vitro transcription with T7 RNA polymerase of a promoter-template DNA, which contains a sequence for the enzyme component, RNA 24-mer (Rz24), of a mutant hammerhead ribozyme system. Sequence analysis and enzymatic probing study showed that Rz28 has 4 extra nucleotides at the 3'-terminus, the sequence of which is complementary to that of the 5'-terminal sequence of Rz24, and forms a stable hairpin structure. NMR studies using a 15N-guanine-labeled derivative suggested that Rz28 contains tandem G:A pairs that are not of the side-by-side type which is found in the crystal structure of hammerhead ribozyme complexes. Comparison of the HMQC spectra of 15N-guanine-labeled Rz28 and Rz24 suggested that Rz24 also contains the same type of tandem G:A pairs.
authors.affiliation: Department of Bioengineering, Faculty of Engineering, Yokohama National University.
authors.forename: T
authors.initials: T
authors.lastname: Sakamoto
authors.forename: G
authors.initials: G
authors.lastname: Kawai
authors.forename: M
authors.initials: M
authors.lastname: Katahira
authors.forename: M H
authors.initials: MH
authors.lastname: Kim
authors.forename: Y
authors.initials: Y
authors.lastname: Tanaka
authors.forename: Y
authors.initials: Y
authors.lastname: Kurihara
authors.forename: T
authors.initials: T
authors.lastname: Kohno
authors.forename: S
authors.initials: S
authors.lastname: Watanabe
authors.forename: S
authors.initials: S
authors.lastname: Yokoyama
authors.forename: K
authors.initials: K
authors.lastname: Watanabe
authors.forename: S
authors.initials: S
authors.lastname: Uesugi
mesh_terms: D000225:Adenine / Q000737:chemistry*; D001482:Base Composition; D006147:Guanine / Q000737:chemistry*; D009682:Magnetic Resonance Spectroscopy / Q000379:methods; D009587:Nitrogen Isotopes; D009690:Nucleic Acid Conformation; D012313:RNA / Q000737:chemistry*; D016337:RNA, Catalytic / Q000737:chemistry*; D012091:Repetitive Sequences, Nucleic Acid
chemical_list: D009587:Nitrogen Isotopes; D016337:RNA, Catalytic; D006147:Guanine; D012313:RNA; D000225:Adenine