Stem-loop structure of RNA
In Vitro Synthesis of Minus-Strand RNA by an Isolated Cereal Yellow Dwarf Virus RNA-Dependent RNA Polymerase Requires VPg and a Stem-Loop Structure at the 3′ End of the Virus RNA
... (CYDV) RNA has a 5 ⴕ -terminal genome-linked protein ...template-dependent RNA-dependent RNA polymerase (RdRp) has been produced from a CYDV membrane-bound RNA polymerase by treatment with BAL ...
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Role of the 5′-Proximal Stem-Loop Structure of the 5′ Untranslated Region in Replication and Translation of Hepatitis C Virus RNA
... positive-strand RNA viruses, the 5⬘UTR has multiple important roles in the regulation of viral RNA trans- lation and/or replication (3, 4, 10, 18, 19, 22, 45, ...cloverleaf structure at the 5⬘ end of ...
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A stem loop structure in the wingless transcript defines a consensus motif for apical RNA transport
... conserved stem-loop ...predicted structure conservation, however, mutagenesis shows significant leeway for both sequence and structure variation in the predicted ...
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Specific binding of host cell proteins to the 3'-terminal stem-loop structure of rubella virus negative-strand RNA.
... Using cell lysates from uninfected and infected cells, we observed proteins cross-linked with the 3' - SL RNA of Sindbis virus RNA that were similar in molecular weight to the proteins o[r] ...
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BHK cell proteins that bind to the 3' stem-loop structure of the West Nile virus genome RNA.
... SL RNA, is shown in ...viral RNA (24) followed by PCR ampli- fication, as described in the legend to ...genome RNA that contained a tail with two restriction ...an RNA product after in vitro ...
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An RNA stem-loop structure directs hepatitis B virus genomic RNA encapsidation.
... These studies reveal that i in the lower stem, base pairing but not specific primary sequence is required for function; ii there is no requirement for base pairing in the lower portion o[r] ...
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A dual role of the putative RNA dimerization initiation site of human immunodeficiency virus type 1 in genomic RNA packaging and proviral DNA synthesis.
... HIV-1 stem-loop mutants, viral par- ticles and proviral DNA synthesis were ...Genomic RNA was packaged at similar levels in wild-type and mutant virions produced by transfected Cos7 ...mic RNA ...
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A twist in the tail : SHAPE mapping of long range interactions and structural rearrangements of RNA elements involved in HCV replication
... cruciform structure (3BSL3) involving the adjacent SL9217 ...(5BSL3.3) stem–loops ...higher-order structure, or to define SL9217 and SL9324 as ...the structure forms at least two long-range ...
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Distinct RNA Elements Confer Specificity to Flavivirus RNA Cap Methylation Events
... minimal stem-loop RNA required for N-7 methylation, we deleted the top and side helices and the two loops ...resulting RNA, ⌬ Hc/Hd/La/Lb, was com- pletely inactive for N-7 methylation ...5. ...
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Characterization of an Essential RNA Secondary Structure in the 3′ Untranslated Region of the Murine Coronavirus Genome
... bulged stem-loop structure. A 264-nt RNA encompassing the stem-loop region of the MHV 3⬘ UTR was transcribed in vitro from plasmid pBL122 ...single-stranded RNA-specific ...
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The Nucleotides on the Stem-Loop RNA Structure in the Junction Region of the Hepatitis E Virus Genome Are Critical for Virus Replication
... SL structure inhibit HEV ...replicon RNA at the same time into Huh7 cells, we measured the Rluc signal at 5 days ...the stem-loop structure in the junction region of the HEV genome ...
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Mechanism of in vitro synthesis of covalently linked dimeric RNA molecules by the poliovirus replicase.
... The 3' terminus of PstI minus-strand template is known to contain a stem-loop structure nucleotides 9 through 37 13 which may interact with the viral replicase to initiate RNA synthesis [r] ...
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Stability of HIV Frameshift Site RNA Correlates with Frameshift Efficiency and Decreased Virus Infectivity
... (HIV-1) RNA frameshift site stem-loop, frameshift efficiency, and infectivity, using pseudotyped HIV-1 and HEK293T ...overall, RNA thermodynamic ...site RNA stem-loop ...
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Recognition of the Core RNA Promoter for Minus-Strand RNA Synthesis by the Replicases of Brome Mosaic Virus andCucumber Mosaic Virus
... SLC-like sequence in CMV isolates within subgroup I. Un- like BMV, of which only a limited number of isolates have been identified, many CMV isolates have been identified and sequenced. Based on serological evidence and ...
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The Murine Norovirus Core Subgenomic RNA Promoter Consists of a Stable Stem-Loop That Can Direct Accurate Initiation of RNA Synthesis
... viral RNA transfection efficiency, as we have previously observed that viral antigen expression after transfection of RNA is due to trans- lation of the capped RNA only and not due to viral ...
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The Topology of Bulges in the Long Stem of the Flavivirus 3′ Stem-Loop Is a Major Determinant of RNA Replication Competence
... predicted stem-loop structure, portions of the 3 ⬘ terminal 79 nt of the DEN2 3 ⬘ SL sequence were substituted for analogous segments of the 3 ⬘ terminal 79 nt of the WN virus 3 ⬘ SL se- quence ...
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A twist in the tail: SHAPE mapping of long-range interactions and structural rearrangements of RNA elements involved in HCV replication.
... cruciform structure (3BSL3) involving the adjacent SL9217 ...(5BSL3.3) stem–loops ...higher-order structure, or to define SL9217 and SL9324 as ...the structure forms at least two long-range ...
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Comparative analysis of the structure and function of adenovirus virus-associated RNAs.
... Secondary structure analysis indicated that all seven RNAs conform to the model in which VA RNA possesses three main structural regions, a terminal stem, an apical stem-loop, and a centr[r] ...
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In vitro analysis of virus-associated RNA I (VAI RNA): inhibition of the double-stranded RNA-activated protein kinase PKR by VAI RNA mutants correlates with the in vivo phenotype and the structural integrity of the central domain.
... Whether it is a short stem-loop or a large loop in the central domain, our in vitro block assays and the secondary structure analysis suggest that it is this structure that is critical f[r] ...
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Effects of nucleotide changes on the ability of hepatitis delta virus to transcribe, process, and accumulate unit-length, circular RNA.
... circular RNA genome of hepatitis delta virus (HDV) can fold into an unbranched rodlike ...this structure and assayed the effects on the ability of the genomes to replicate and accumulate processed ...
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