DNA triplex folding: Moderate versus high salt conditions View Full Text


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Article Info

DATE

2013-06

AUTHORS

Nam-Kyung Lee, Albert Johner, Il-Buem Lee, Seok-Cheol Hong

ABSTRACT

Some specific sequences in duplex DNA can give rise to local formation of a triple helical DNA called triplex together with a separate strand. Recent single-molecule FRET experiments, performed on DNA strands designed to fold into a triplex, allow us to measure the folding and unfolding time distributions under neutral p H conditions. The average times of both processes are of the order of 1 s. The folding time is moderately sensitive to salt concentration. The average unfolding time is found to be nearly constant. Interestingly, the distributions of the unfolding time revealed heterogeneous kinetics at moderate salt concentration (∼ 10 mM), but not at high salt (∼ 100 mM). We relate this salt dependence to different folding paths and folded states, which are governed by the (salt-dependent) stiffness of the third single-stranded donor sequence. Finally we comment on the formation of intramolecular triplex named H-DNA in a torsionally constrained duplex under physiological salt conditions, which mimics the in vivo situation of triplex folding. More... »

PAGES

57

References to SciGraph publications

  • 2012-06. A rule of seven in Watson-Crick base-pairing of mismatched sequences in NATURE STRUCTURAL & MOLECULAR BIOLOGY
  • 2003-07. Irreversible adsorption from dilute polymer solutions in THE EUROPEAN PHYSICAL JOURNAL E
  • 2007-11. Compressing a rigid filament: Buckling and cyclization in THE EUROPEAN PHYSICAL JOURNAL E
  • 2002-05. The electrostatic persistence length of polymers beyond the OSF limit in THE EUROPEAN PHYSICAL JOURNAL E
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    URI

    http://scigraph.springernature.com/pub.10.1140/epje/i2013-13057-4

    DOI

    http://dx.doi.org/10.1140/epje/i2013-13057-4

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1006148986

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/23749234


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