Stochastic ratchet mechanisms for replacement of proteins bound to DNA.

  title={Stochastic ratchet mechanisms for replacement of proteins bound to DNA.},
  author={Simona Cocco and John Frederick Daniel Marko and R{\'e}mi Monasson},
  journal={Physical review letters},
  volume={112 23},
Experiments indicate that unbinding rates of proteins from DNA can depend on the concentration of proteins in nearby solution. Here we present a theory of multistep replacement of DNA-bound proteins by solution-phase proteins. For four different kinetic scenarios we calculate the dependence of protein unbinding and replacement rates on solution protein concentration. We find (1) strong effects of progressive "rezipping" of the solution-phase protein onto DNA sites liberated by "unzipping" of… CONTINUE READING
Recent Discussions
This paper has been referenced on Twitter 2 times over the past 90 days. VIEW TWEETS

From This Paper

Figures, tables, and topics from this paper.


Publications citing this paper.
Showing 1-9 of 9 extracted citations


Publications referenced by this paper.
Showing 1-10 of 16 references


  • C. P. Joshi, D. Panda, +5 authors P. Chen
  • Natl. Acad. Sci. USA 109, 15121
  • 2012
Highly Influential
5 Excerpts

BMC Biophysics 4

  • C. Trapp, M. Schenkelberger, A. Ott
  • 20 (2011); A. Ott, private communication
  • 2013
1 Excerpt


  • N. F. Dupuis, E. D. Holmstrom, D. J. Nesbitt
  • J. 105 , 756
  • 2013
1 Excerpt

Cell 154

  • H. Taekjip
  • 723
  • 2013


  • B. Gibb, L. F. Ye, S. C. Gergoudis, Y. H. Kwon, H. Niu
  • Sung, E.C. Greene. PLoS ONE 9(2) e87922
  • 2013
3 Excerpts

Single molecule mechanical study: DNA hybridization under strain, in preparation

  • F. Ding, J. F. Allemand, D.Bensimon, S. Cocco, M. Manosas, V. Croquette
  • 2013
1 Excerpt


  • F. Ding, J. Ouellet
  • Gouet, J.F. Allemand, D.Bensimon, S. Cocco, M…
  • 2012
1 Excerpt

van Oijen

  • A. W. Kulczyk, C. C. Richardson, M. A.
  • Proc . Natl . Acad . Sci . USA
  • 2012


  • J. J. Loparo
  • W. Kulczyk, C.C. Richardson, A.M. van Oijen. Proc…
  • 2011
2 Excerpts

Similar Papers

Loading similar papers…