Computational Studies of RNA structure

RNA structure is a young field, but it is also evolving rapidly from a technical standpoint.   New techniques for solving, analyzing and interpreting RNA structures are vital for continued progress in the field of RNA Biology, and many of these approaches are being developed in our laboratory.  We pioneered a reduced representation for the RNA backbone that facilitated rapid structural analysis and motif discovery, and we then leveraged this approach to create the first programs for accurately modeling RNA into electron density.  We are working to make RNA crystallography easier and more accurate, we are developing new ways to interpret the architectural features of large RNA molecules, and we are finding new approaches to the prediction of structure from sequence.

Reduced representations of the RNA backbone enable accurate modeling into electron density.

Relevant Publications

Visualizing the ai5γ group IIB intron
Srinivas Somarowthu, Michal Legiewicz, Kevin S. Keating and Anna Marie Pyle
Nucleic Acids Res. 2013 (42) : 1947-58
Solving nucleic acid structures by molecular replacement: examples from group II intron studies
Marco Marcia, Elisabeth Humphris-Narayaan, Kevin S. Keating, Srinivas Somarowthu, K. Rajashankar and Anna Marie Pyle
Acta Crystallogr D Biol Crystallogr 2013 (69) : 2174-2185
RCrane: semi-automated RNA model building
Kevin S. Keating and Anna Marie Pyle
Acta Cryst. 2012 (68) : 985-995
Discrete RNA libraries from pseudo-torsional space
Elisabeth Humphris-Narayanan and Anna Marie Pyle,
J Mol Biol. 2012 (421) : 6-26
A new way to see RNA
Kevin S, Keating, Elisabeth L. Humphris and Anna Marie Pyle
Q Rev Biophys. 2011 (44) : 433-466