ArticleNucleic acids research2016
Mechanisms of small molecule-DNA interactions probed by single-molecule force spectroscopy.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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Who cites it
61 citing papers in PubMed, 197 citations in OpenAlex.
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- Long-stranded XNA-cssDNA hybrids for robust data storage.Science advances · 2026Article
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- Flow Cytometric Screening Reveals Nucleic Acid Dyes Aberrantly Stain Peptidoglycan Sacculi.ACS infectious diseases · 2026Article
- Vision of Life's Code: Molecular Probe Nanoarchitectonics for Deep RNA/DNA Illumination.ACS nano · 2026Review
- Azure A Dye Interaction with Double-Stranded DNA Can Be Modulated by the Ionic Strength: Choosing the Binding Mode.ACS omega · 2026Article
- Photophysical and DNA-Binding Properties of Phenoxazine-Based Push-Pull Type Organic Chromophores: Insights From DFT, Molecular Docking, and Optical Studies.ChemistryOpen · 2026Article
- Theoretical, biological, and electrochemical explanation of the complexity of Peramivir's drug-DNA interaction.Scientific reports · 2025Article
- Enhanced Anti-Leukemic Activity of Platinum Lamivudine Compared To Lamivudine Through Differential Gene Regulation and DNA Groove Binding.Cell biochemistry and biophysics · 2025Article
- Folate-based binuclear Mn(II) chelates with 2,2'-bipyridine/1,10-phenanthroline as targeted anticancer agents for colon cancer cells.Scientific reports · 2025Article
- Deep learning molecular interaction motifs from receptor structures alone.Journal of cheminformatics · 2025Article
- Disruptive DNA Intercalation Is the Mode of Interaction Behind Niacinamide Antimicrobial Activity.Microorganisms · 2025Article
- Using UV-Vis Titration to Elucidate Novel Epigallocatechin Gallate (EGCG)-Induced Binding of the c-MYC G-Quadruplex.Pharmaceuticals (Basel, Switzerland) · 2025Article
- Single-molecule measurements of double-stranded DNA condensation.Biophysical journal · 2025Review
- DNA-based nanosized functional ruthenium(II) complex as potential phosphorescent probe to track tumor cells.Molecular diversity · 2025Article
- Current Understanding and Translational Prospects of Tetrahedral Framework Nucleic Acids.JACS Au · 2025Review
- Binuclear ruthenium complex linker length tunes DNA threading intercalation kinetics.Biophysical journal · 2025Article
- DNA binding to small anionic ligands: the case of Orange G dye.European biophysics journal : EBJ · 2025Article
- Chia Derived Peptides Affecting Bacterial Membrane and DNA: Insights from Staphylococcus aureus and Escherichia coli Studies.Plant foods for human nutrition (Dordrecht, Netherlands) · 2024Article
1 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
Abstract
There is a wide range of applications for non-covalent DNA binding ligands, and optimization of such interactions requires detailed understanding of the binding mechanisms. One important class of these ligands is that of intercalators, which bind DNA by inserting aromatic moieties between adjacent DNA base pairs. Characterizing the dynamic and equilibrium aspects of DNA-intercalator complex assembly may allow optimization of DNA binding for specific functions. Single-molecule force spectroscopy studies have recently revealed new details about the molecular mechanisms governing DNA intercalation. These studies can provide the binding kinetics and affinity as well as determining the magnitude of the double helix structural deformations during the dynamic assembly of DNA-ligand complexes. These results may in turn guide the rational design of intercalators synthesized for DNA-targeted drugs, optical probes, or integrated biological self-assembly processes. Herein, we survey the progress in experimental methods as well as the corresponding analysis framework for understanding single molecule DNA binding mechanisms. We discuss briefly minor and major groove binding ligands, and then focus on intercalators, which have been probed extensively with these methods. Conventional mono-intercalators and bis-intercalators are discussed, followed by unconventional DNA intercalation. We then consider the prospects for using these methods in optimizing conventional and unconventional DNA-intercalating small molecules.
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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.