ArticleNucleic acids research2012
The rotation-coupled sliding of EcoRV.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
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- How to scan naked DNA using promiscuous recognition and no clamping: a model for pioneer transcription factors.Nucleic acids research · 2024Article
- Subunit-Dependent Surface Mobility and Localization of NMDA Receptors in Hippocampal Neurons Measured Using Nanobody Probes.The Journal of neuroscience : the official journal of the Society for Neuroscience · 2023Article
- Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI.Nucleic acids research · 2020Article
- High Free-Energy Barrier of 1D Diffusion Along DNA by Architectural DNA-Binding Proteins.Journal of molecular biology · 2018Article
- CpG and methylation-dependent DNA binding and dynamics of the methylcytosine binding domain 2 protein at the single-molecule level.Nucleic acids research · 2017Article
- Article
- The dynamics of the monomeric restriction endonuclease BcnI during its interaction with DNA.Nucleic acids research · 2017Article
- Tetrameric structure of the restriction DNA glycosylase R.PabI in complex with nonspecific double-stranded DNA.Scientific reports · 2016Article
- TALE proteins search DNA using a rotationally decoupled mechanism.Nature chemical biology · 2016Article
- Molecular sled sequences are common in mammalian proteins.Nucleic acids research · 2016Article
- Dynamic DNA binding licenses a repair factor to bypass roadblocks in search of DNA lesions.Nature communications · 2016Article
- Single molecule studies of DNA mismatch repair.DNA repair · 2014Review
- Elimination of inter-domain interactions increases the cleavage fidelity of the restriction endonuclease DraIII.Protein & cell · 2014Article
- Double-strand DNA end-binding and sliding of the toroidal CRISPR-associated protein Csn2.Nucleic acids research · 2013Article
- Optical Methods to Study Protein-DNA Interactions in Vitro and in Living Cells at the Single-Molecule Level.International journal of molecular sciences · 2013Article
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7 authors.
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Abstract
It has been proposed that certain type II restriction enzymes (REs), such as EcoRV, track the helical pitch of DNA as they diffuse along DNA, a so-called rotation-coupled sliding. As of yet, there is no direct experimental observation of this phenomenon, but mounting indirect evidence gained from single-molecule imaging of RE-DNA complexes support the hypothesis. We address this issue by conjugating fluorescent labels of varying size (organic dyes, proteins and quantum dots) to EcoRV, and by fusing it to the engineered Rop protein scRM6. Single-molecule imaging of these modified EcoRVs sliding along DNA provides us with their linear diffusion constant (D(1)), revealing a significant size dependency. To account for the dependence of D(1) on the size of the EcoRV label, we have developed four theoretical models describing different types of motion along DNA and find that our experimental results are best described by rotation-coupled sliding of the protein. The similarity of EcoRV to other type II REs and DNA binding proteins suggests that this type of motion could be widely preserved in other biological contexts.
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