User:Steven J. Koch/MTC/March 29 2011

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Outline

  1. Review last HW
  2. Summary of Kramers' reaction rate theory (we'll discuss in detail following lectures, diffusion, etc.)
    1. Group work: Given prefactor of 10^-9 per second, Calculate bond lifetimes for energy barriers of: 1, 10, 20, and 40 kT
  3. Bond lifetime under force
    1. Why do we care?
      1. Evan Evans: Everything about cells is kinetics, not equilibrium diffEQ
      2. Famous example: luekocyte rolling]
      3. RNA Polymerase II / nucleosome barriers
      4. Kinesin neck linker (see Larry's paper)
    2. Set-up the problem
    3. Group work: intuition
    4. Solve expected PDF for bond "strength" assuming constant force ramp rate, other assumptions
    5. Examples
  4. Preview next HW

Resources

  • Articles added to Mendeley
    • Easiest to follow: Evan Evans' Annual Review (2001): Evans, E. (2001). Probing the relation between force--lifetime--and chemistry in single molecular bonds. Annual review of biophysics and biomolecular structure, 30, 105-28. doi: 10.1146/annurev.biophys.30.1.105.
    • Thorough: Hänggi, P., Talkner, P., & Borkovec, M. (1990). Reaction-rate theory: fifty years after Kramers. Reviews of Modern Physics, 62(2), 251-341. doi: 10.1103/RevModPhys.62.251.
    • Bell, G. (1978). Models for the specific adhesion of cells to cells. Science, 200(4342), 618-627. doi: 10.1126/science.347575.
  • Wikipedia article on George Bell
  • Wikipedia article on Kramers (needs improvement!)

Whiteboard photos from today