ArticleNucleic acids research2006
Spontaneous sharp bending of DNA: role of melting bubbles.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Influence of Media Disorder on DNA Melting: A Monte Carlo Study.Journal of chemical theory and computation · 2025Article
- Twist-stretch relations in nucleic acids.European biophysics journal : EBJ · 2023Article
- Mechanical Flexibility of DNA: A Quintessential Tool for DNA Nanotechnology.Sensors (Basel, Switzerland) · 2020Review
- Base-Pair Mismatch Can Destabilize Small DNA Loops through Cooperative Kinking.Physical review letters · 2019Article
- Two conformational states in D-shaped DNA: Effects of local denaturation.Scientific reports · 2016Article
- Simulation Assisted Analysis of the Intrinsic Stiffness for Short DNA Molecules Imaged with Scanning Atomic Force Microscopy.PloS one · 2015Article
- Atomic force microscopy study of DNA flexibility on short length scales: smooth bending versus kinking.Nucleic acids research · 2014Article
- Strong bending of the DNA double helix.Nucleic acids research · 2013Review
- DNA bending propensity in the presence of base mismatches: implications for DNA repair.The journal of physical chemistry. B · 2013Article
- Measuring shape-dependent looping probability of DNA.Biophysical journal · 2013Article
- Single-molecule spectroscopic study of dynamic nanoscale DNA bending behavior of HIV-1 nucleocapsid protein.The journal of physical chemistry. B · 2013Article
- DNA methylation regulated nucleosome dynamics.Scientific reports · 2013Article
- Thermodynamic and kinetic basis for recognition and repair of 8-oxoguanine in DNA by human 8-oxoguanine-DNA glycosylase.Nucleic acids research · 2011Article
- Local and global effects of strong DNA bending induced during molecular dynamics simulations.Nucleic acids research · 2009Article
- Bending modes of DNA directly addressed by cryo-electron microscopy of DNA minicircles.Nucleic acids research · 2009Article
- Formation of the open complex by bacterial RNA polymerase--a quantitative model.Biophysical journal · 2008Article
- Mapping the phase diagram of the writhe of DNA nanocircles using atomistic molecular dynamics simulations.Nucleic acids research · 2008Article
- T4 DNA ligase is more than an effective trap of cyclized dsDNA.Nucleic acids research · 2007Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The role of centrally located and distributed base pair mismatches ('melting bubbles') on localized bending and stiffness of short dsDNA fragments is evaluated using time-dependent fluorescence lifetime measurements. Distributed melting bubbles are found to induce larger bending angles and decreased levels of stiffness in DNA than centrally located ones of comparable overall size. Our results indicate that spontaneous local opening-up of the DNA duplex could facilitate sharp bending of short DNA strands even in the absence of DNA binding proteins. We also find that the occurrence of two closely spaced melting bubbles will generally be favored when a large energetic barrier must be overcome in forming the desired bent DNA structure.
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