Poster abstracts

Poster number 71 submitted by Amal Abu Almakarem

Structural Analysis of RNA Base Triples: Classification, Prediction, and Effects of Mutations

Amal S. Abu Almakarem (Department of Biological Sciences, Bowling Green State University), Anton I. Petrov (Department of Biological Sciences, Bowling Green State University), Craig L. Zirbel (Department of Mathematics and Statistics, Center for Biomolecular Sciences, Bowling Green State University), Neocles B. Leontis (Department of Chemistry, Center for Biomolecular Sciences, Bowling Green State University)

Abstract:
RNA base triples are clusters of three nucleotides interacting edge-to-edge through hydrogen bonding. To understand the sequence constraints imposed by base triples, we have introduced a classification that accounts for all observed triples and predicts triples not yet observed in the 3D structure database.

Each triple family belongs to two \

References:
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Sarver, M., Zirbel, C.L., Stombaugh, J., Mokdad, A., & Leontis, N. (2008). FR3D: Finding local and composite recurrent structural motifs in RNA 3D structures. Journal of Mathematical Biology, 56(1), 215-252.

Stombaugh, J., C.L. Zirbel, E. Westhof, and N.B. Leontis (2009). Frequency and isostericity of RNA base pairs. Nucleic Acids Res. 37:2294-312.

Word, J. M., Lovell, S. C., LaBean, T. H., Taylor, H. C., Zalis, M. E., Presley, B. K., et al. (1999). Visualizing and quantifying molecular goodness-of-fit: Small-probe contact dots with explicit hydrogen atoms. Journal of Molecular Biology 285:1711-1733.

Keywords: RNA base triple, Superfamily, Serious steric clashes