Mutagenesis of the 3′42 Nucleotide Host Protein Binding Element of the MHV 3′UTR
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The mouse hepatitis virus (MHV) genome is a 32kb message sense single stranded RNA. Studies with defective interfering RNAs have shown that the 3′ terminal 447nt are required for replication (Kim et al., 1993; Lin et al., 1993). Previous studies have identified two host protein binding elements within the 3’ terminal 166nt of the 3′UTR. The first of these is located at nucleotides 154-129 [assigning position 1 to the first nucleotide 5′ of the poly (A)] tail and the second is located within the 3′ terminal 42 nucleotides (Liu et al, 1997; Yu and Leibowitz, 1995). Both elements contain the conserved motif UGAARNGAAGUU which is required for host protein binding and for DI RNA replication (Yu and Leibowitz, 1995; Liu et al., 1997). In the present study we further identify nucleotides involved in host protein binding and explore the role of RNA secondary structure in this process.
KeywordsSecondary Structure Mouse Hepatitis Virus Secondary Structure Model Protein Binding Activity Wild Type Structure
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