The DOI matches its Crossref record; 30 of the 30 references it cites were found in a registry or an index.
Direct Observation of Hierarchical Folding in Single Riboswitch Aptamers
Open accessAbstract
Riboswitches regulate genes through structural changes in ligand-binding RNA aptamers. With the use of an optical-trapping assay based on in situ transcription by a molecule of RNA polymerase, single nascent RNAs containing pbuE adenine riboswitch aptamers were unfolded and refolded. Multiple folding states were characterized by means of both force-extension curves and folding trajectories under constant force by measuring the molecular contour length, kinetics, and energetics with and without adenine. Distinct folding steps correlated with the formation of key secondary or tertiary structures and with ligand binding. Adenine-induced stabilization of the weakest helix in the aptamer, the mechanical switch underlying regulatory action, was observed directly. These results provide an integrated view of hierarchical folding in an aptamer, demonstrating how complex folding can be resolved into constituent parts, and supply further insights into tertiary structure formation.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Nonequilibrium Equality for Free Energy Differences
Jarzynski, C. (1997) · Physical Review Letters · doi:10.1103/physrevlett.78.2690 · Cited by 5,293
Principles of Nucleic Acid Structure
(2008) · Elsevier eBooks · doi:10.1016/b978-0-12-369507-9.x5001-8 · Cited by 4,504
Principles of Nucleic Acid Structure
Saenger, W. (1984) · Springer Advanced Texts in Chemistry · doi:10.1007/978-1-4612-5190-3 · Cited by 4,150
Smith, S. B., Cui, Y., & Bustamante, C. (1996) · Science · doi:10.1126/science.271.5250.795 · Cited by 2,770
Liphardt, J., Dumont, S., Smith, S. B., Tinoco, I., & Bustamante, C. (2002) · Science · doi:10.1126/science.1071152 · Cited by 1,243
MINT: the Molecular INTeraction database
Chatr-aryamontri, A., Ceol, A., Palazzi, L. M., Nardelli, G., Schneider, M. V., Castagnoli, L., & Cesareni, G. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkl950 · Cited by 1,026
Direct observation of base-pair stepping by RNA polymerase
Abbondanzieri, E. A., Greenleaf, W. J., Shaevitz, J. W., Landick, R., & Block, S. M. (2005) · Nature · doi:10.1038/nature04268 · Cited by 855
Self-citationIntrinsic Rates and Activation Free Energies from Single-Molecule Pulling Experiments
Dudko, O. K., Hummer, G., & Szabó, A. (2006) · Physical Review Letters · doi:10.1103/physrevlett.96.108101 · Cited by 835
REGULATION OF BACTERIAL GENE EXPRESSION BY RIBOSWITCHES
Winkler, W. C., & Breaker, R. R. (2005) · Annual Review of Microbiology · doi:10.1146/annurev.micro.59.030804.121336 · Cited by 727
Riboswitches Control Fundamental Biochemical Pathways in Bacillus subtilis and Other Bacteria
Mandal, M., Boese, B., Barrick, J. E., Winkler, W. C., & Breaker, R. R. (2003) · Cell · doi:10.1016/s0092-8674(03)00391-x · Cited by 726
Cited by
Equalities and Inequalities: Irreversibility and the Second Law of Thermodynamics at the Nanoscale
Jarzynski, C. (2011) · Annual Review of Condensed Matter Physics · doi:10.1146/annurev-conmatphys-062910-140506 · Cited by 1,012
RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview
Šponer, J., Bussi, G., Krepl, M., Banáš, P., Bottaro, S., Cunha, R. A., Gil-Ley, A., Pinamonti, G., Poblete, S., Jurečka, P., et al. (2018) · Chemical Reviews · doi:10.1021/acs.chemrev.7b00427 · Cited by 599
The Dynamic Landscapes of RNA Architecture
Cruz, J. A., & Westhof, E. (2009) · Cell · doi:10.1016/j.cell.2009.02.003 · Cited by 347
5′-UTR G-quadruplex structures acting as translational repressors
Beaudoin, J.-D., & Perreault, J.-P. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq557 · Cited by 255
Metabolite recognition principles and molecular mechanisms underlying riboswitch function
Serganov, A., & Patel, D. J. (2012) · Annual Review of Biophysics · doi:10.1146/annurev-biophys-101211-113224 · Cited by 160
Metadata
- Authors
- Greenleaf, W. J., Frieda, K. L., Foster, D. A. N., Woodside, M. T., & Block, S. M.
- Venue
- Science
- Published
- 2008-02
- Volume
- 319
- Issue
- 5863
- Pages
- 630-633
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W1984357954
- Cited by
- 385
- References
- 30
- FWCI
- 14.77
- Type
- journal article
- Language
- en
- Open access
- green
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Direct Observation of Hierarchical Folding in Single Riboswitch Aptamers. https://app.cochat.ai/papers/10.1126/science.1151298
- The paper
- Greenleaf, W. J., Frieda, K. L., Foster, D. A. N., Woodside, M. T., & Block, S. M. (2008). Direct Observation of Hierarchical Folding in Single Riboswitch Aptamers. Science. https://doi.org/10.1126/science.1151298
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
