ArticleNucleic acids research2013
Structural complexity of Dengue virus untranslated regions: cis-acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
42 citing papers in PubMed, 61 citations in OpenAlex.
- Comparative analysis of flavivirus sfRNA dynamics and secondary structure.Journal of virology · 2026Article
- The SL-I structural element of the 3' UTR region of West Nile virus participates in the regulation of viral translation.The Journal of general virology · 2026Article
- Comparative analysis of flavivirus sfRNA dynamics and secondary structure.bioRxiv : the preprint server for biology · 2026Article
- Conserved long-range interactions are required for stable folding of orthoflaviviral genomic RNA.Nucleic acids research · 2025Article
- Review
- Subgenomic Flaviviral RNAs of Dengue Viruses.Viruses · 2023Review
- Article
- Inter- and Intramolecular RNA-RNA Interactions Modulate the Regulation of Translation Mediated by the 3' UTR in West Nile Virus.International journal of molecular sciences · 2023Article
- Docking and MM study of non-structural protein (NS5) of Japanese Encephalitis Virus (JEV) with some derivatives of adenosyl.Frontiers in chemistry · 2023Article
- Examples of Structural Motifs in Viral Genomes and Approaches for RNA Structure Characterization.International journal of molecular sciences · 2022Review
- Rational design of West Nile virus vaccine through large replacement of 3' UTR with internal poly(A).EMBO molecular medicine · 2021Article
- Three-dimensional structure of a flavivirus dumbbell RNA reveals molecular details of an RNA regulator of replication.Nucleic acids research · 2021Article
- Information Encoded by the Flavivirus Genomes beyond the Nucleotide Sequence.International journal of molecular sciences · 2021Review
- The Pseudo-Circular Genomes of Flaviviruses: Structures, Mechanisms, and Functions of Circularization.Cells · 2021Review
- Site-specific covalent labeling of large RNAs with nanoparticles empowered by expanded genetic alphabet transcription.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Discoveries of Exoribonuclease-Resistant Structures of Insect-Specific Flaviviruses Isolated in Zambia.Viruses · 2020Article
- Structures and Functions of the 3' Untranslated Regions of Positive-Sense Single-Stranded RNA Viruses Infecting Humans and Animals.Frontiers in cellular and infection microbiology · 2020Review
- Flavors of Flaviviral RNA Structure: towards an Integrated View of RNA Function from Translation through Encapsidation.BioEssays : news and reviews in molecular, cellular and developmental biology · 2019Review
- Effects of Refolding on Large-Scale RNA Structure.Biochemistry · 2019Article
- Musashi binding elements in Zika and related Flavivirus 3'UTRs: A comparative study in silico.Scientific reports · 2019Article
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
The Dengue virus (DENV) genome contains multiple cis-acting elements required for translation and replication. Previous studies indicated that a 719-nt subgenomic minigenome (DENV-MINI) is an efficient template for translation and (-) strand RNA synthesis in vitro. We performed a detailed structural analysis of DENV-MINI RNA, combining chemical acylation techniques, Pb(2+) ion-induced hydrolysis and site-directed mutagenesis. Our results highlight protein-independent 5'-3' terminal interactions involving hybridization between recognized cis-acting motifs. Probing analyses identified tandem dumbbell structures (DBs) within the 3' terminus spaced by single-stranded regions, internal loops and hairpins with embedded GNRA-like motifs. Analysis of conserved motifs and top loops (TLs) of these dumbbells, and their proposed interactions with downstream pseudoknot (PK) regions, predicted an H-type pseudoknot involving TL1 of the 5' DB and the complementary region, PK2. As disrupting the TL1/PK2 interaction, via 'flipping' mutations of PK2, previously attenuated DENV replication, this pseudoknot may participate in regulation of RNA synthesis. Computer modeling implied that this motif might function as autonomous structural/regulatory element. In addition, our studies targeting elements of the 3' DB and its complementary region PK1 indicated that communication between 5'-3' terminal regions strongly depends on structure and sequence composition of the 5' cyclization region.
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Registered trials
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