ArticleProceedings of the National Academy of Sciences of the United States of America2008
Single-molecule studies of group II intron ribozymes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- Site-Specific Dual-Color Labeling of Long RNAs.Methods in molecular biology (Clifton, N.J.) · 2026Article
- The conformational space of RNase P RNA in solution.Nature · 2025Article
- Single-Molecule Study of DNAzyme Reveals Its Intrinsic Conformational Dynamics.International journal of molecular sciences · 2023Article
- Single-molecule study of the effects of temperature, pH, and RNA base on the stepwise enzyme kinetics of 10-23 deoxyribozyme.RSC advances · 2022Article
- Combining Coarse-Grained Simulations and Single Molecule Analysis Reveals a Three-State Folding Model of the Guanidine-II Riboswitch.Frontiers in molecular biosciences · 2022Article
- Pseudoknot length modulates the folding, conformational dynamics, and robustness of Xrn1 resistance of flaviviral xrRNAs.Nature communications · 2021Article
- FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices.eLife · 2021Review
- Role of the central junction in folding topology of the protein-free human U2-U6 snRNA complex.RNA (New York, N.Y.) · 2020Article
- Optimal molecular crowding accelerates group II intron folding and maximizes catalysis.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Site-specific dual-color labeling of long RNAs for single-molecule spectroscopy.Nucleic acids research · 2018Article
- Specific phosphorothioate substitution within domain 6 of a group II intron ribozyme leads to changes in local structure and metal ion binding.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2018Article
- Bulky Lesion Bypass Requires Dpo4 Binding in Distinct Conformations.Scientific reports · 2017Article
- Pseudoknot Formation Seeds the Twister Ribozyme Cleavage Reaction Coordinate.Journal of the American Chemical Society · 2017Article
- Cation-induced kinetic heterogeneity of the intron-exon recognition in single group II introns.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Native purification and labeling of RNA for single molecule fluorescence studies.Methods in molecular biology (Clifton, N.J.) · 2015Article
- The role of Mg(II) in DNA cleavage site recognition in group II intron ribozymes: solution structure and metal ion binding sites of the RNA-DNA complex.The Journal of biological chemistry · 2014Article
- Post-transcriptional modifications modulate conformational dynamics in human U2-U6 snRNA complex.RNA (New York, N.Y.) · 2014Article
- Crystal structure of 3WJ core revealing divalent ion-promoted thermostability and assembly of the Phi29 hexameric motor pRNA.RNA (New York, N.Y.) · 2013Article
- Dissecting single-molecule signal transduction in carbon nanotube circuits with protein engineering.Nano letters · 2013Article
- The structural stabilization of the κ three-way junction by Mg(II) represents the first step in the folding of a group II intron.Nucleic acids research · 2013Article
Corrections and comments
- Erratum issued
Authors and funding
4 authors.
Funding
Abstract
Group II intron ribozymes fold into their native structure by a unique stepwise process that involves an initial slow compaction followed by fast formation of the native state in a Mg(2+)-dependent manner. Single-molecule fluorescence reveals three distinct on-pathway conformations in dynamic equilibrium connected by relatively small activation barriers. From a most stable near-native state, the unobserved catalytically active conformer is reached. This most compact conformer occurs only transiently above 20 mM Mg(2+) and is stabilized by substrate binding, which together explain the slow cleavage of the ribozyme. Structural dynamics increase with increasing Mg(2+) concentrations, enabling the enzyme to reach its active state.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.