241 NMR Structure Determination to Improve RNA Structure Prediction

Thursday, November 5, 2009: 11:00 AM
Hereford (Camino Real Hotel)
Susan J. Schroeder , Department of Chemistry and Biochemistry, University of Oklahoma, Norman, OK
Xiaobo Gu , Department of Chemistry and Biochemistry, University of Oklahoma, Norman, OK
Steven Harris , Department of Chemistry and Biochemistry, University of Oklahoma, Norman, OK
Prohead RNA (pRNA) is an essential component of the genome packaging motor for phi29 and related bacteriophage.  pRNA self assembles to form dimers, trimers, and multimers in a magnesium dependent and sequence dependent manner.  Although the sequences from different bacteriopahge species vary widely, the RNA secondary structure, or pattern of base pairing within the RNA sequence, is conserved.  This research tests the hypothesis that the tertiary structure is also conserved.    The NMR structure of a 6-nucleotide hairpin loop from pRNA containing two conserved nucleotides and a novel UU pair is presented.  This structure is compared to other loop structures with sequence variations and predictions from the MC-SYM RNA structure prediction program. These results will inform further improvements in RNA structure prediction programs.