NMR spectroscopic characterization of a model RNA duplex reflecting the core sequence of hammerhead ribozymes |
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| Authors: | Yoshikazu Hattori Daichi Yamanaka Saori Morioka Taishi Yamaguchi Honoka Tomonari Chojiro Kojima |
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| Institution: | 1. Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Yamashiro-cho, Tokushima, Japan;2. Graduate School of Pharmaceutical Sciences, Tohoku University, Aobayama, Aoba-ku, Sendai, Miyagi, Japan;3. Institute for Protein Research, Osaka University, Suita, Osaka, Japan;4. Graduate School of Engineering, Yokohama National University, Hodogaya-ku, Yokohama, Japan |
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| Abstract: | ABSTRACTHammerhead ribozymes are a model system for studying molecular mechanism of RNA catalysis. Physicochemical data-driven mechanistic studies are an indispensable step towards understanding the catalysis of hammerhead ribozymes. Here we characterized a model RNA duplex with catalytically important sheared-type G12-A9 base pair and A9-G10.1 metal ion-binding motif in hammerhead ribozymes. By using high magnetic field NMR, all base proton signals, including catalytic residues, were unambiguously assigned. We further characterized structural features of this RNA molecule and found that it reflects the structural features of the A9-G10.1 motif of hammerhead ribozymes. Therefore, this RNA molecule is suitable for extracting an intrinsic physicochemical properties of catalytically important residues. |
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| Keywords: | NMR spectroscopic characterization core sequence ribozymes |
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