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Nucleic Acids Research, Vol 24, Issue 21 4197-4201, Copyright © 1996 by Oxford University Press

ARTICLES

Secondary structure of the panhandle RNA of influenza virus A studied by NMR spectroscopy

HK Cheong, C Cheong and BS Choi
Department of Chemistry, Korea Advanced Institute of Science and Technology, Yusung-gu, Taejon. haekap@reflex.kaist.ac.kr

The double-stranded panhandle structure of the influenza virus RNA is important for replication, transcription and packaging into the virion of the virion RNA. The solution structure of a 34 nt RNA which contains the conserved panhandle sequences has been investigated by one- and two- dimensional NMR spectroscopy. The partially complementary 5'- and 3'- ends of the RNA form a double helical structure which is, on average, close to A-form. The stem contains bulges at nucleotides A10, A12 and C26. In between these bulges, C11 and G25 form a Watson-Crick base pair. The structural features of the panhandle provide a framework for the explanation of mutational analysis and for a better understanding of RNA-polymerase interactions.
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