Energetic coupling between DNA bending and base pair opening.

J Ramstein, R Lavery - … of the National Academy of Sciences, 1988 - National Acad Sciences
The pathway for base pair opening within a B-DNA duplex is investigated by theoretical
molecular modeling. The results show that the disruption of a single base pair is …

BS transition in short oligonucleotides

J Morfill, F Kühner, K Blank, RA Lugmaier, J Sedlmair… - Biophysical …, 2007 - cell.com
Stretching experiments with long double-stranded DNA molecules in physiological ambient
revealed a force-induced transition at a force of 65pN. During this transition between B-DNA …

Sequence-dependent basepair opening in DNA double helix

A Krueger, E Protozanova, MD Frank-Kamenetskii - Biophysical Journal, 2006 - cell.com
Preservation of genetic information in DNA relies on shielding the nucleobases from
damage within the double helix. Thermal fluctuations lead to infrequent events of the Watson …

Strong bending of the DNA double helix

A Vologodskii, M D. Frank-Kamenetskii - Nucleic acids research, 2013 - academic.oup.com
During the past decade, the issue of strong bending of the double helix has attracted a lot of
attention. Here, we overview the major experimental and theoretical developments in the …

[HTML][HTML] Salt dependence of the elasticity and overstretching transition of single DNA molecules

JR Wenner, MC Williams, I Rouzina, VA Bloomfield - Biophysical journal, 2002 - cell.com
As double-stranded DNA is stretched to its B-form contour length, models of polymer
elasticity can describe the dramatic increase in measured force. When the molecule is …

Force and kinetic barriers to unzipping of the DNA double helix

S Cocco, R Monasson… - Proceedings of the …, 2001 - National Acad Sciences
A theory of the unzipping of double-stranded DNA is presented and is compared to recent
micromanipulation experiments. It is shown that the interactions that stabilize the double …

Force-induced melting of the DNA double helix 1. Thermodynamic analysis

I Rouzina, VA Bloomfield - Biophysical journal, 2001 - cell.com
The highly cooperative elongation of a single B-DNA molecule to almost twice its contour
length upon application of a stretching force is interpreted as force-induced DNA melting …

Molecular dynamics simulation of DNA stretching is consistent with the tension observed for extension and strand separation and predicts a novel ladder structure

MW Konrad, JI Bolonick - Journal of the American Chemical …, 1996 - ACS Publications
Molecular dynamics simulations were used to model the response of several double-
stranded dodecamers to gradually increasing tension applied to the opposing 3 'ends of the …

[HTML][HTML] DNA overstretching in the presence of glyoxal: structural evidence of force-induced DNA melting

L Shokri, MJ McCauley, I Rouzina, MC Williams - Biophysical journal, 2008 - cell.com
When a long DNA molecule is stretched beyond its B-form contour length, a transition occurs
in which its length increases by a factor of 1.7, with very little force increase. A quantitative …

Force-induced melting of a short DNA double helix

LH Pope, MC Davies, CA Laughton, CJ Roberts… - European Biophysics …, 2001 - Springer
The dynamic behaviour of DNA is of fundamental importance to many cellular processes.
One principal characteristic, central to transcription and replication, is the ability of the …