ArticleProceedings of the National Academy of Sciences of the United States of America2012
Remote control of DNA-acting enzymes by varying the Brownian dynamics of a distant DNA end.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed.
- Direct observation of subunit rotation during DNA strand exchange by serine recombinases.Nature communications · 2024Article
- Single Molecule Thermodynamic Penalties Applied to Enzymes by Whispering Gallery Mode Biosensors.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Article
- Article
- Identification of a Novel Cis-Acting Regulator of HIV-1 Genome Packaging.International journal of molecular sciences · 2021Article
- Modulation of a protein-folding landscape revealed by AFM-based force spectroscopy notwithstanding instrumental limitations.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Optical tweezers in single-molecule biophysics.Nature reviews. Methods primers · 2021Article
- Allosteric Regulation of HIV-1 Capsid Structure for Gag Assembly, Virion Production, and Viral Infectivity by a Disordered Interdomain Linker.Journal of virology · 2019Article
- Snapshots of a molecular swivel in action.Nucleic acids research · 2018Article
- Crossover-site sequence and DNA torsional stress control strand interchanges by the Bxb1 site-specific serine recombinase.Nucleic acids research · 2016Article
- When Computer Simulation Excels Experiment.Biophysical journal · 2016Article
- Simulation of DNA Supercoil Relaxation.Biophysical journal · 2016Article
- Controlled rotation mechanism of DNA strand exchange by the Hin serine recombinase.Scientific reports · 2016Article
- Dynamics of equilibrium folding and unfolding transitions of titin immunoglobulin domain under constant forces.Journal of the American Chemical Society · 2015Article
- Topological constraints strongly affect chromatin reconstitution in silico.Nucleic acids research · 2015Article
- Tethered fluorophore motion: studying large DNA conformational changes by single-fluorophore imaging.Biophysical journal · 2014Article
- Torque correlation length and stochastic twist dynamics of DNA.Physical review. E, Statistical, nonlinear, and soft matter physics · 2014Article
- Real-time single-molecule tethered particle motion analysis reveals mechanistic similarities and contrasts of Flp site-specific recombinase with Cre and λ Int.Nucleic acids research · 2013Article
- Single-molecule spectroscopy reveals photosynthetic LH2 complexes switch between emissive states.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Enzyme rates are usually considered to be dependent on local properties of the molecules involved in reactions. However, for large molecules, distant constraints might affect reaction rates by affecting dynamics leading to transition states. In single-molecule experiments we have found that enzymes that relax DNA torsional stress display rates that depend strongly on how the distant ends of the molecule are constrained; experiments with different-sized particles tethered to the end of 10-kb DNAs reveal enzyme rates inversely correlated with particle drag coefficients. This effect can be understood in terms of the coupling between molecule extension and local molecular stresses: The rate of bead thermal motion controls the rate at which transition states are visited in the middle of a long DNA. Importantly, we have also observed this effect for reactions on unsupercoiled DNA; other enzymes show rates unaffected by bead size. Our results reveal a unique mechanism through which enzyme rates can be controlled by constraints on macromolecular or supramolecular substrates.
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Registered trials
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.