Symbolic Generation and Clustering of RNA 3-D Motifs

Proceedings of the Twentieth International Conference on Machine Learning, 1995

Volume

Proceedings of the Twentieth International Conference on Machine Learning, 1995

Contents

Noncanonical G.A base pairs play important structural and functional roles in ribonucleic acids (RNA). In particular, the 5'-G-A-3'/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.