ArticleNucleic acids research2005
Analysis of scanning force microscopy images of protein-induced DNA bending using simulations.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Tethered Particle Motion Analysis of DNA-Binding Properties of Architectural Proteins.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Analysis of single, cisplatin-induced DNA bends by atomic force microscopy and simulations.Journal of molecular recognition : JMR · 2018Article
- Studying protein-DNA interactions using atomic force microscopy.Seminars in cell & developmental biology · 2018Review
- Single-molecule studies of high-mobility group B architectural DNA bending proteins.Biophysical reviews · 2017Review
- Symmetric curvature descriptors for label-free analysis of DNA.Scientific reports · 2014Article
- DNA G-segment bending is not the sole determinant of topology simplification by type II DNA topoisomerases.Scientific reports · 2014Article
- Mechanosensing of DNA bending in a single specific protein-DNA complex.Scientific reports · 2013Article
- Double-strand DNA end-binding and sliding of the toroidal CRISPR-associated protein Csn2.Nucleic acids research · 2013Article
- Cascade-mediated binding and bending of negatively supercoiled DNA.RNA biology · 2012Review
- Label-free, atomic force microscopy-based mapping of DNA intrinsic curvature for the nanoscale comparative analysis of bent duplexes.Nucleic acids research · 2012Article
- Direct measurement of DNA bending by type IIA topoisomerases: implications for non-equilibrium topology simplification.Nucleic acids research · 2011Article
- Biophysical characterization of DNA binding from single molecule force measurements.Physics of life reviews · 2010Review
- Insights into the architecture and stoichiometry of Escherichia coli PepA*DNA complexes involved in transcriptional control and site-specific DNA recombination by atomic force microscopy.Nucleic acids research · 2009Article
- Molecular beacon-equilibrium cyclization detection of DNA-protein complexes.Biophysical journal · 2007Article
- Concentration-dependent organization of DNA by the dinoflagellate histone-like protein HCc3.Nucleic acids research · 2007Article
- Real-time observation of DNA looping dynamics of Type IIE restriction enzymes NaeI and NarI.Nucleic acids research · 2006Article
Corrections and comments
- Erratum issued
Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bending of DNA is a feature essential to the function of many DNA-binding proteins. Bending angles can be estimated with a variety of techniques, but most directly from images obtained using scanning force microscopy (SFM). Direct measurement of the bending angle using a tangent method often produces angles that deviate significantly from values obtained using other techniques. Here, we describe the application of SFM in combination with simulations of DNA as a means to estimate protein-induced bending angles in a reliable and unbiased fashion. In this manner, we were able to obtain accurate estimates for the bending angles induced by nuclear factor I, octamer-binding transcription factor 1, the human XPC-Rad23B complex and integration host factor [correction]
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