title: An in vitro-selected RNA receptor for the GAAC loop: modular receptor for non-GNRA-type tetraloop.
abstract: Although artificial RNA motifs that can functionally replace the GNRA/receptor interaction, a class of RNA-RNA interacting motifs, were isolated from RNA libraries and used to generate designer RNA structures, receptors for non-GNRA tetraloops have not been found in nature or selected from RNA libraries. In this study, we report successful isolation of a receptor motif interacting with GAAC, a non-GNRA tetraloop, from randomized sequences embedded in a catalytic RNA. Biochemical characterization of the GAAC/receptor interacting motif within three structural contexts showed its binding affinity, selectivity and structural autonomy. The motif has binding affinity comparable with that of a GNRA/receptor, selectivity orthogonal to GNRA/receptors and structural autonomy even in a large RNA context. These features would be advantageous for usage of the motif as a building block for designer RNAs. The isolated motif can also be used as a query sequence to search for unidentified naturally occurring GANC receptor motifs.
authors: Department of Chemistry and Biochemistry, Graduate School of Engineering, Kyushu University, Fukuoka 819-0395, Japan.
authors: Junya
authors: J
authors: Ishikawa
authors: Hiroyuki
authors: H
authors: Furuta
authors: Yoshiya
authors: Y
authors: Ikawa
mesh_terms: D007438:Introns; D008274:Magnesium / Q000737:chemistry; D009154:Mutation; D009690:Nucleic Acid Conformation; D059372:Nucleotide Motifs; D012313:RNA / Q000737:chemistry*; D059370:RNA Folding; D016337:RNA, Catalytic / Q000737:chemistry / Q000378:metabolism
chemical_list: D016337:RNA, Catalytic; D012313:RNA; D008274:Magnesium
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