ArticleNucleic acids research2000
Structure and dynamics of three-way DNA junctions: atomic force microscopy studies.
Article in Nucleic acids research, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Functionalization of AFM Tips and Supports for Molecular Recognition Force Spectroscopy and Recognition Imaging.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Silanes to Silatranes: Robust Functionalization for Single-Molecule Force Spectroscopy.Chembiochem : a European journal of chemical biology · 2026Article
- Article
- DNA-directed formation of plasmonic core-satellite nanostructures for quantification of hepatitis C viral RNA.Chemical science · 2024Article
- A copper(ii) peptide helicate selectively cleaves DNA replication foci in mammalian cells.Chemical science · 2023Article
- Construction of Multiple Logic Circuits Based on Allosteric DNAzymes.Biomolecules · 2022Article
- Atomic force microscopy-A tool for structural and translational DNA research.APL bioengineering · 2021Review
- Dynamic Stereoselection of Peptide Helicates and Their Selective Labeling of DNA Replication Foci in Cells*.Angewandte Chemie (International ed. in English) · 2021Article
- Increased Flexibility between Stems of Intramolecular Three-Way Junctions by the Insertion of Bulges.Biophysical journal · 2018Article
- Direct AFM Visualization of the Nanoscale Dynamics of Biomolecular Complexes.Journal of physics D: Applied physics · 2018Article
- DNA Three Way Junction Core Decorated with Amino Acids-Like Residues-Synthesis and Characterization.Molecules (Basel, Switzerland) · 2016Article
- Synthesis of 9-Substituted Triptycene Building Blocks for Solid-Phase Diversification and Nucleic Acid Junction Targeting.Organic letters · 2016Article
- Probing transient protein-mediated DNA linkages using nanoconfinement.Biomicrofluidics · 2014Article
- Visualization of DNA and protein-DNA complexes with atomic force microscopy.Methods in molecular biology (Clifton, N.J.) · 2014Article
- Robust analysis of synthetic label-free DNA junctions in solution by X-ray scattering and molecular simulation.Scientific reports · 2013Article
- Microglial activation and antioxidant responses induced by the Parkinson's disease protein α-synuclein.Journal of neuroimmune pharmacology : the official journal of the Society on NeuroImmune Pharmacology · 2013Article
- Mica functionalization for imaging of DNA and protein-DNA complexes with atomic force microscopy.Methods in molecular biology (Clifton, N.J.) · 2013Article
- Imaging of nucleic acids with atomic force microscopy.Methods (San Diego, Calif.) · 2011Review
- Preparation of DNA and nucleoprotein samples for AFM imaging.Micron (Oxford, England : 1993) · 2011Review
- α-Synuclein Alters Toll-Like Receptor Expression.Frontiers in neuroscience · 2011Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
We have used atomic force microscopy (AFM) to study the conformation of three-way DNA junctions, intermediates of DNA replication and recombination. Immobile three-way junctions with one hairpin arm (50, 27, 18 and 7 bp long) and two relatively long linear arms were obtained by annealing two partially homologous restriction fragments. Fragments containing inverted repeats of specific length formed hairpins after denaturation. Three-way junctions were obtained by annealing one strand of a fragment from a parental plasmid with one strand of an inverted repeat-containing fragment, purified from gels, and examined by AFM. The molecules are clearly seen as three-armed molecules with one short arm and two flexible long arms. The AFM analysis revealed two important features of three-way DNA junctions. First, three-way junctions are very dynamic structures. This conclusion is supported by a high variability of the inter-arm angle detected on dried samples. The mobility of the junctions was observed directly by imaging the samples in liquid (AFM in situ). Second, measurements of the angle between the arms led to the conclusion that three-way junctions are not flat, but rather pyramid-like. Non-flatness of the junction should be taken into account in analysis of the AFM data.
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