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Understanding the Kinetics and Thermodynamics of RNA Folding

Categories: Chemistry and Chemical Biology (CCB)
Speaker: Arthur Pardi, University of Colorado-Boulder
Date & Time: September 29, 2009 - 11:00am
Location: WR Auditorium

The kinetics and thermodynamics for folding are being studied in several RNAs including: the commonly occurring GAAA tetraloop-tetraloop receptor tetrtiary motif,  the small catalytic RNA, the hammerhead ribozyme and RNA aptamer used to monitor serum levels of the bronchodialator druge, theophylline .  Ensemble and single fluorescences techniques are used to determine the effects of metal ions  these RNAs.   The kinetics for ligand binding of an RNA aptamer that show high affinity and specificity theophylline is studied by fluorescence and NMR methods.  The effects of  metals on folding and activity of these RNAs will be discussed.
Key References:
1.  Boots, J. L., Canny, M. D., Azimi, E. and Pardi, A. "Metal ion specificities for folding and cleavage activity in the Schistosoma hammerhead ribozyme" RNA, (2008), 14, 2212-2222.
2..  Latham, M. P. and Pardi, A. "Measurement of imino 1H-1H residual dipolar couplings in RNA" J. Biomol. NMR (2009), 43, 121-129.
3. Downey, C. D.; Fiore, J. L.; Stoddard, C. D.; Hodak, J. H.; Nesbitt, D. J. & Pardi, A. "Metal Ion Dependence, Thermodynamics, and Kinetics for Intramolecular Docking of a GAAA Tetraloop and Receptor Connected by a Flexible Linker", Biochemistry (2006), 45, 3664-3673.

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