Rna pseudoknot
The internal initiation of translation in bovine viral diarrhea virus RNA depends on the presence of an RNA pseudoknot upstream of the initiation codon
... and the requirement of defined regions in the secondary struc- ture of the 5' UTR have been investigated [1,2]. As a 21% reduction was observed when deleting coding sequences of the polyprotein in these experiments the ...
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Identification of the RNA Pseudoknot within the 3′ End of the Porcine Reproductive and Respiratory Syndrome Virus Genome as a Pathogen-Associated Molecular Pattern To Activate Antiviral Signaling via RIG-I and Toll-Like Receptor 3
... an RNA pseudoknot region, including IFN-  and IFN- ␣ ...of pseudoknot on viral RNA ...the pseudoknot segment suppressed PRRSV replication in PAMs, which was consistent with the effects ...
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An RNA Pseudoknot Is Required for Production of Yellow Fever Virus Subgenomic RNA by the Host Nuclease XRN1
... subgenomic RNA that is colinear with the distal part of the viral 3 ⴕ -untranslated region ...flavivirus RNA (sfRNA) results from the incomplete degradation of the viral genome by the host 5 ⴕ -3 ⴕ ...
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Inverse folding of RNA pseudoknot structures
... 3-noncrossing RNA pseudoknot structure, ...3-noncrossing RNA structures alone implies that there are many sequences mapping (folding) into a single ...
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Internal entry of ribosomes is directed by the 5' noncoding region of classical swine fever virus and is dependent on the presence of an RNA pseudoknot upstream of the initiation codon.
... an RNA pseudoknot just upstream of the polyprotein translation initi- ation site in pestiviruses and HCV has been presented (13, ...this pseudoknot in HCV revealed that both stems I and II of this ...
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Genetic Interactions between an Essential 3′ cis-Acting RNA Pseudoknot, Replicase Gene Products, and the Extreme 3′ End of the Mouse Coronavirus Genome
... MHV RNA synthesis is limited to no more than 160 nt of the 3 ⬘ ...for RNA synthesis, although they may play ancillary roles yet to be ...some RNA seg- ments that were previously proposed to base pair ...
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Cross-Clade Inhibition of Recombinant Human Immunodeficiency Virus Type 1 (HIV-1), HIV-2, and Simian Immunodeficiency Virus SIVcpz Reverse Transcriptases by RNA Pseudoknot Aptamers
... There is a growing appreciation that evaluation of the utility of novel antiviral compounds must include an assessment of their efficacies against RTs from phylogenetically diverse HIV strains. Although some inroads have ...
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Bipartite signal for read-through suppression in murine leukemia virus mRNA: an eight-nucleotide purine-rich sequence immediately downstream of the gag termination codon followed by an RNA pseudoknot.
... 8 0022-538X/92/085127-06$02.00/0 Copyright © 1992, American Society for Microbiology Bipartite Signal for Read-Through Suppression in Murine Leukemia Virus mRNA: an Eight-Nucleotide Puri[r] ...
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An RNA Pseudoknot in the 3′ End of the Arterivirus Genome Has a Critical Role in Regulating Viral RNA Synthesis
... The SL5 structure and loop region are critical for EAV RNA synthesis. BHK-21 cells were transfected with infectious RNA transcribed in vitro from wild-type and mutant EAV full-length cDNA clones. For an ...
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The role of the pseudoknot at the 3' end of turnip yellow mosaic virus RNA in minus-strand synthesis by the viral RNA-dependent RNA polymerase.
... the pseudoknot structure. Previ- ously, the 39-terminal 93 nt of TYMV RNA were cloned be- hind a T7 promoter and fragments 4193 and 10193, having 4 and 10 different nonviral nt at the 59 end, respectively, ...
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Initiation of Genomic Plus-Strand RNA Synthesis from DNA and RNA Templates by a Viral RNA-Dependent RNA Polymerase
... disrupted, RNA replication was greatly reduced (18), whereas disruption of the putative minus-strand stem-loop structure was not correlated with effects on viral replication ...plus-strand RNA is involved ...
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Biochemical and genetic evidence for a pseudoknot structure at the 3' terminus of the poliovirus RNA genome and its role in viral RNA amplification.
... RNA secondary structure analysis by chemnical and enzymatic probing of mutant 3NC202 and revertant R9 3'-terminal RNA transcripts demonstrated that PK formation was impaired in 3NC202 RN[r] ...
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Enhancement of RNA Interference Effect in P19 EC Cells by an RNA-dependent RNA Polymerase
... PKR and RNase L, both acting as effectors of the IFN response [20]. These inhibitory effects have impeded studies of RNAi in mammals. Recent work by Elbashir and colleagues [3] has shown that siRNA [21- to 22-nucleotides ...
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Generation of infectious RNA complexes in orbiviruses: RNA- RNA interactions of genomic segments
... a RNA complex through RNA-RNA interactions for genome organization [6, 7, 9-11, ...EHDV-7 RNA could effectively recover progeny virus ...and RNA complex generated viable viruses in ...
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Influenza A virus RNA-dependent RNA polymerase: analysis of RNA synthesis in vitro.
... All of the above experiments suggested that the polymerase undergoes a conformational change(s) during transcription ini- tiation-elongation. Figure 7 illustrates a model that could ex- plain the differential stimulation ...
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De Novo Initiation of RNA Synthesis by the Arterivirus RNA-Dependent RNA Polymerase
... initiated RNA synthesis de novo on homopolymeric templates in a template-specific ...novo RNA synthesis generally initiates with a purine as the starting ...of RNA synthesis or runoff polymerization ...
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RNA duplex unwinding activity of poliovirus RNA-dependent RNA polymerase 3Dpol.
... Belozersky Institute of Physical Chemical Biology, Moscow State University, Moscow 119899,2 and Institute of Poliomyelitis and Viral Encephalitides, Russian Academy of Medical Sciences, [r] ...
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Fast prediction of RNA-RNA interaction
... for RNA-RNA interaction ...the RNA-RNA interaction prediction problem incorporates the accessibility of multiple unpaired regions, and a matching algorithm to compute the optimal set of inter- ...
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Poly(A) introduced upstream of the upstream pseudoknot domain of Tobacco mosaic virus led to sequence deletion after serial passaging in host plants
... Defective interfering viruses arise through deletion, re- arrangement, or recombination of a competent viral genome (Marriott and Dimmock 2010). Defective viruses compete with complete virus for replication and/or en- ...
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Membrane Association of the RNA-Dependent RNA Polymerase Is Essential for Hepatitis C Virus RNA Replication
... and RNA replication of the LVL mu- ...its RNA replication was com- pletely ...the RNA replication of this mutant was completely abolished suggests that the GVG motif may play another ...
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