Fluctuations, responses and energetics of molecular motors

Mathematical Biosciences

Volumn 207, Issue 2, 2007, Pages 365-386

  Harada, Takahiro ^a   Sasa, Shin ichi ^b  

^a KYOTO UNIVERSITY   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

Author keywords

Brownian motor model; Energetics; Fluctuations; Molecular motor; Response

Indexed keywords

BROWNIAN MOVEMENT; CORRELATION METHODS; HEAVY IONS; MATHEMATICAL MODELS;

BROWNIAN MOTOR MODELS; FLUCTUATION RESPONSE RELATION (FRR); MOLECULAR MOTOR;

BIOMOLECULES;

KINESIN; MOLECULAR MOTOR;

ENERGETICS; ENERGY DISSIPATION; EXPERIMENTAL STUDY; FLUCTUATING ASYMMETRY; NERVOUS SYSTEM;

ARTICLE; DIFFUSION; FOURIER ANALYSIS; LINEAR ENERGY TRANSFER; MATHEMATICAL ANALYSIS; PARAMETER; STOCHASTIC MODEL;

ADENOSINE TRIPHOSPHATE; ALGORITHMS; ANIMALS; BIOMECHANICS; ENERGY METABOLISM; FOURIER ANALYSIS; HUMANS; KINESIN; MODELS, BIOLOGICAL; MOLECULAR MOTOR PROTEINS; NERVE TISSUE PROTEINS; THERMODYNAMICS;

EID: 34248595477     PISSN: 00255564     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mbs.2006.11.003     Document Type: Article

References (28)

1. Hill T.L. Theoretical formalism for the sliding filament model of contraction of striated muscle, Part I. Prog. Biophys. Mol. Biol. 28 (1974) 267
2. Alberts B., Bray D., Johnson A., Lewis J., Raff M., Roberts K., and Walter P. Essential Cell Biology (2004), Garland Science Pub, New York
3. Vale R.D., Reese T.S., and Sheetz M.P. Identification of a novel force-generating protein, kinesin, involved in microtubule-based motility. Cell 42 (1985) 39
4. Boyer P. The binding change mechanism for ATP synthase - some probabilities and possibilities. Biochim. Biophys. Acta 1140 (1993) 215
5. Noji H., Yasuda R., Yoshida M., and Kinoshita K. Direct observation of the rotation of F1-ATPase. Nature 386 (1997) 299
6. Svoboda K., Schmidt C.F., Schnapp B.J., and Block S.M. Direct observation of kinesin stepping by optical trapping interferometry. Nature 365 (1993) 721
7. Kitamura K., Tokunaga M., Iwane A.H., and Yanagida T. A single myosin head moves along an actin filament with regular steps of 5.3 nanometres. Nature 398 (1999) 129
8. Svoboda K., Mitra P.P., and Block S.M. Fluctuation analysis of motor protein movement and single enzyme kinetics. Proc. Natl. Acad. Sci. USA 91 (1994) 11782
9. Astumian R.D., and Bier M. Fluctuation driven ratchets: molecular motors. Phys. Rev. Lett. 72 (1994) 1766
10. Nishiyama M., Higuchi H., and Yanagida T. Chemomechanical coupling of the forward and backward steps of single kinesin molecules. Nat. Cell Biol. 4 (2002) 790
11. Carter N.J., and Cross R.A. Mechanism of the kinesin step. Nature 435 (2005) 308
12. Julicher F., Ajdari A., and Prost J. Modeling molecular motors. Rev. Mod. Phys. 69 (1997) 1269
13. Reimann P. Brownian motors: noisy transport far from equilibrium. Phys. Rep. 361 (2002) 57
14. Prost J., Chauwin J.-F., Peliti L., and Ajidari A. Asymmetric pumping of particles. Phys. Rev. Lett. 72 (1994) 2652
15. Sekimoto K. Kinetic characterization of heat bath and the energetics of thermal ratchet models. J. Phys. Soc. Jpn. 66 (1997) 1234
16. Kamegawa H., Hondou T., and Takagi F. Energetics of a Forced Thermal Ratchet. Phys. Rev. Lett. 80 (1998) 5251
17. Takagi F., and Hondou T. Thermal noise can facilitate energy conversion by a ratchet system. Phys. Rev. E 60 (1999) 4954
18. Parrondo J.M.R., Blanco J.M., Cao F.J., and Brito R. Efficiency of Brownian motors. Europhys. Lett. 43 (1998) 248
19. Harada T., and Sasa S.-i. Equality connecting energy dissipation with violation of fluctuation-response relation. Phys. Rev. Lett. 95 (2005) 130602
20. Harada T., and Sasa S.-i. Energy dissipation and violation of the fluctuation-response relation in non-equilibrium Langevin systems. Phys. Rev. E 73 (2006) 026131
21. Risken H. The Fokker-Planck Equation: Methods of Solution and Applications (1996), Springer, Berlin
22. Harada T., Hayashi K., and Sasa S.-i. Exact transformation of a Langevin equation to a fluctuating response equation. J. Phys. A Math. Gen. 38 (2005) 3799
23. Gardiner C.W. Handbook of Stochastic Methods for Physics, Chemistry and the Natural Sciences (2004), Springer, Berlin
24. Crooks G.E. Path-ensemble averages in systems driven far from equilibrium. Phys. Rev. E 61 (2000) 2361
25. Imparato A., and Peliti L. Fluctuation relations for a driven Brownian particle. Phys. Rev. E 74 (2006) 026106
26. Okada Y., and Hirokawa N. A processive single-headed motor: kinesin superfamily protein KIF1A. Science 283 (1999) 1152
27. Okada Y., and Hirokawa N. Mechanism of the single-headed processivity: diffusional anchoring between the K-loop of kinesin and the C terminus of tubulin. Proc. Natl. Acad. Sci. USA 97 (2000) 640
28. Okada Y., Higuchi H., and Hirokawa N. Processivity of the single-headed kinesin KIF1A through biased binding to tubulin. Nature 424 (2003) 574