Theoretical analysis of microtubule dynamics at all times

Journal of Physical Chemistry B

Volumn 118, Issue 48, 2014, Pages 13777-13784

  Li, Xin ^a   Kolomeisky, Anatoly B ^a  

^a RICE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMOLECULES; BIOPOLYMERS; CELL PROLIFERATION; COMPUTER SIMULATION; DIMERS; DYNAMICS; MONTE CARLO METHODS; SHRINKAGE;

CELLULAR ACTIVITIES; DYNAMIC INSTABILITY; GUANOSINE TRIPHOSPHATE; INITIAL CONDITIONS; INTRACELLULAR TRANSPORT; MICROTUBULE DYNAMICS; MONTE CARLO COMPUTER SIMULATIONS; THEORETICAL CALCULATIONS;

CELL SIGNALING;

GUANOSINE TRIPHOSPHATE; TUBULIN;

CHEMICAL STRUCTURE; CHEMISTRY; METABOLISM; MICROTUBULE; MONTE CARLO METHOD;

GUANOSINE TRIPHOSPHATE; MICROTUBULES; MODELS, MOLECULAR; MONTE CARLO METHOD; TUBULIN;

EID: 84914820019     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp507206f     Document Type: Article

References (31)

1. Alberts, B.; Johnson, A.; Lewis, J.; Raff. M.; Roberts, K.; Walter, P. Molecular Biology of the Cell, 5th ed.; Garland Science: New York, 2007.
2. Howard, J. Mechanics of Motor Proteins and the Cytoskeleton; Sinauer Associates: Sunderland, MA, 2001.
3. Bray, D. Cell Movements: From Molecules to Motility; 2nd ed.; Garland Publishing: New York, 2001.
4. Desai, A.; Mitchison, T. J. Microtubule Polymerization Dynamics. Annu. Rev. Cell Dev. Biol. 1997, 13, 87-117.
5. Gardner, M. K.; Zanic, M.; Howard, J. Microtubule Catastrophe and Rescue. Curr. Opin. Cell Biol. 2013, 25, 14-22.
6. Kerssemakers, J. W. J.; Munteanu, E. L.; Laan, L.; Noetzel, T. L.; Janson, M. E.; Dogterom, M. Assembly Dynamics of Microtubules at Molecular Resolution. Nature 2006, 442, 709-712.
7. Schek, H. T.; Hunt, A. Microtubule Assembly Dynamics at the Nanoscale. Curr. Biol. 2007, 17, 1445-1455.
8. Mitchison, T.; Kirschner, M. Dynamic Instability of Microtubule Growth. Nature 1984, 312, 237-242.
9. Brun, L.; Rupp, B.; Ward, J. J.; Nedelec, F. A Theory of Microtubule Catastrophes and their Regulation. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 21173-21178.
10. Dimitrov, A.; Quesnoit, M.; Moutel, S.; Cantaloube, I.; Pous, C.; Perez, F. Detection of GTP-Tubulin Conformation in Vivo Reveals a Role for GTP Remnants in Microtubule Rescues. Science 2008, 322, 1353-1356.
11. Odde, D. J.; Cassimeris, L.; Buettner, H. M. Kinetics of Microtubule Catastrophe Assessed by Probabilistic Analysis. Biophys. J. 1995, 69, 796-802.
12. Stepanova, T.; Smal, I.; van Haren, J.; Akinci, U.; Liu, Z.; Miedema, M.; Limpens, R.; van Ham, M.; van der Reijden, M.; Poot, R.; et al. History-Dependent Catastrophes Regulate Axonal Microtubule Behavior. Curr. Biol. 2010, 20, 1023-1028.
13. Drechsel, D. N.; Hyman, A. A.; Cobb, M. H.; Kirschner, M. W. Modulation of the Dynamic Instability of Tubulin Assembly by the Microtubule-Associated Protein Tau. Mol. Biol. Cell 1992, 3, 1141-1154.
14. Flyvbjerg, H.; Holy, T. E.; Leibler, S. Stochastic Dynamics of Microtubules: A Model for Caps and Catastrophes. Phys. Rev. Lett. 1994, 73, 2372-2375.
15. Li, X.; Kolomeisky, A. B. Theoretical Analysis of Microtubules Dynamics Using a Physical-Chemical Description of Hydrolysis. J. Phys. Chem. B 2013, 117, 9217-9223.
16. Li, X.; Kolomeisky, A. B. A New Theoretical Approach to Analyze Complex Processes in Cytoskeleton Proteins. J. Phys. Chem. B 2014, 118, 2966-2972.
17. Kueh, H. Y.; Brieher, W. M.; Mitchison, T. J. Dynamic Stabilization of Actin Filaments. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 16531-16536.
18. Li, X.; Kierfeld, J.; Lipowsky, R. Actin Polymerization and Depolymerization Coupled to Cooperative Hydrolysis. Phys. Rev. Lett. 2009, 103, 048102.
19. Gardner, M. K.; Zanic, M.; Gell, C.; Bormuth, V.; Howard, J. Depolymerizing Kinesins Kip3 and MCAK Shape Cellular Microtubule Architecture by Differential Control of Catastrophe. Cell 2011, 147, 1092-1103.
20. Coombes, C. E.; Yamamoto, A.; Kenzie, M. R.; Odde, D. J.; Gardner, M. K. Evolving Tip Structures Can Explain Age-Dependent Microtubule Catastrophe. Curr. Biol. 2013, 23, 1342-1348.
21. Padinhateeri, R.; Kolomeisky, A. B.; Lacoste, D. Random Hydrolysis Controls the Dynamic Instability of Microtubules. Biophys. J. 2012, 102, 1274-1283.
22. Pantaloni, D.; Hill, T. L.; Carlier, M. F.; Korn, E. D. A Model for Actin Polymerization and the Kinetic Effects of ATP Hydrolysis. Proc. Natl. Acad. Sci. U.S.A. 1985, 82, 7207-7211.
23. Vavylonis, D.; Yang, Q.; O'Shaughnessy, B. Actin Polymerization Kinetics, Cap Structure, and Fluctuations. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 8543-8548.
24. Stukalin, E. B.; Kolomeisky, A. B. ATP Hydrolysis Stimulates Large Length Fluctuations in Single Actin Filaments. Biophys. J. 2006, 90, 2673-2685.
25. Blanchoin, L.; Pollard, T. D. Hydrolysis of ATP by Polymerized Actin Depends on the Bound Divalent Cation but Not Profilin. Biochemistry 2002, 41, 597-602.
26. VanBuren, V.; Odde, D. J.; Cassimeris, L. Estimates of Lateral and Longitudinal Bond Energies within the Microtubule Lattice. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 6035-6040.
27. Pieper, U.; Wegner, A. The End of a Polymerizing Actin Filament Contains Numerous ATP-Subunit Segments That Are Disconnected by ADP-Subunits Resulting from ATP Hydrolysis. Biochemistry 1996, 35, 4396-4402.
28. Antal, T.; Krapivsky, P. L.; Redner, S.; Mailman, M.; Chakraborty, B. Dynamics of an Idealized Model of Microtubule Growth and Catastrophe. Phys. Rev. E 2007, 76, 041907.
29. Li, X.; Lipowsky, R.; Kierfeld, J. Coupling of Actin Hydrolysis and Polymerization: Reduced Description with Two Nucleotide States. Europhys. Lett. 2010, 89, 38010.
30. Burnett, M. M.; Carlsson, A. E. Quantitative Analysis of Approaches to Measure Cooperative Phosphate Release in Polymerized Actin. Biophys. J. 2012, 103, 2369-2378.
31. Janson, M. E.; de Dood, M. E.; Dogterom, M. Dynamic Instability of Microtubules Is Regulated by Force. J. Cell Biol. 2003, 161, 1029-1034.