Symbolic generation and clustering of RNA 3-D motifs.
Non canonical G.A. base pairs play important structural and functional roles in ribonucleic [sequence: see text] acids (RNA). In particular, the 3'-A-G-5' motif and three of its sequence variants have a relatively high occurrence in 16S and 23S ribosomal RNA. Extensive 3-D modeling of these variants has allowed to support a previously proposed 3-D model and to identify another series of conformations consistent with phylogenetic data. The library of 3-D conformations generated by the MC-SYM program was then used to produce 3-D conformations of the small ribonucleotide r(GGCGAGCC)2. This new library includes the conformation determined by nuclear magnetic resonance spectroscopy.
Foucrault
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Département d'Informatique et de Recherche Opérationnelle, Université de Montréal, Québec, Canada.
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D001482:Base Composition; D001483:Base Sequence; D016208:Databases, Factual; D009682:Magnetic Resonance Spectroscopy; D008958:Models, Molecular; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D009843:Oligoribonucleotides / Q000737:chemistry*; D012313:RNA / Q000737:chemistry*; D012335:RNA, Ribosomal / Q000737:chemistry*; D012984:Software
D009843:Oligoribonucleotides; D012335:RNA, Ribosomal; D012313:RNA