ArticleProceedings of the National Academy of Sciences of the United States of America2003
A four-way junction accelerates hairpin ribozyme folding via a discrete intermediate.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 91 papers.
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91 citing papers in PubMed, 197 citations in OpenAlex.
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- RNAJP: enhanced RNA 3D structure predictions with non-canonical interactions and global topology sampling.Nucleic acids research · 2023Article
- Identification of over 200-fold more hairpin ribozymes than previously known in diverse circular RNAs.Nucleic acids research · 2021Article
- Fluorogenic aptamers resolve the flexibility of RNA junctions using orientation-dependent FRET.RNA (New York, N.Y.) · 2021Article
- Application of Advanced Light Microscopy to the Study of HIV and Its Interactions with the Host.Viruses · 2021Review
- 3D RNA nanocage for encapsulation and shielding of hydrophobic biomolecules to improve theNano research · 2020Article
- Role of the central junction in folding topology of the protein-free human U2-U6 snRNA complex.RNA (New York, N.Y.) · 2020Article
- Light-controlled twister ribozyme with single-molecule detection resolves RNA function in time and space.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Single-Molecule Analysis of Reverse Transcriptase Enzymes.Cold Spring Harbor perspectives in biology · 2019Review
- Bayesian-Estimated Hierarchical HMMs Enable Robust Analysis of Single-Molecule Kinetic Heterogeneity.Biophysical journal · 2019Article
- The Story of RNA Folding, as Told in Epochs.Cold Spring Harbor perspectives in biology · 2018Review
- Life under the Microscope: Single-Molecule Fluorescence Highlights the RNA World.Chemical reviews · 2018Review
- Tuning RNA folding and function through rational design of junction topology.Nucleic acids research · 2017Article
- Rapid Characterization of a Mechanically Labile α-Helical Protein Enabled by Efficient Site-Specific Bioconjugation.Journal of the American Chemical Society · 2017Article
- Effect of Population Size and Mutation Rate on the Evolution of RNA Sequences on an Adaptive Landscape Determined by RNA Folding.International journal of biological sciences · 2017Article
- Review
- A G-Rich Motif in the lncRNA Braveheart Interacts with a Zinc-Finger Transcription Factor to Specify the Cardiovascular Lineage.Molecular cell · 2016Article
- Prohead RNA: a noncoding viral RNA of novel structure and function.Wiley interdisciplinary reviews. RNA · 2016Review
- The Shine-Dalgarno sequence of riboswitch-regulated single mRNAs shows ligand-dependent accessibility bursts.Nature communications · 2016Article
31 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors at 3 institutions in 2 countries.
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Abstract
The natural form of the hairpin ribozyme comprises two major structural elements: a four-way RNA junction and two internal loops carried by adjacent arms of the junction. The ribozyme folds into its active conformation by an intimate association between the loops, and the efficiency of this process is greatly enhanced by the presence of the junction. We have used single-molecule spectroscopy to show that the natural form fluctuates among three distinct states: the folded state and two additional, rapidly interconverting states (proximal and distal) that are inherited from the junction. The proximal state juxtaposes the two loop elements, thereby increasing the probability of their interaction and thus accelerating folding by nearly three orders of magnitude and allowing the ribozyme to fold rapidly in physiological conditions. Therefore, the hairpin ribozyme exploits the dynamics of the junction to facilitate the formation of the active site from its other elements. Dynamic interplay between structural elements, as we demonstrate for the hairpin ribozyme, may be a general theme for other functional RNA molecules.
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