Journal of Chemical Physics
Feedback | Help | Exit
The Journal of Chemical Physics
Search:
   
 
 
 
Previous Article
Estimating the viscoelastic moduli of a complex fluid from observation of Brownian motion
A procedure is proposed to estimate the viscoelastic properties of a complex fluid from the behavior of the velocity autocorrelation function of a suspended Brownian particle in a limited range of tim...
Next Article
Error and efficiency of replica exchange molecular dynamics simulations
We derive simple analytical expressions for the error and computational efficiency of replica exchange molecular dynamics (REMD) simulations (and by analogy replica exchange Monte Carlo simulations). ...

Kirkwood–Buff theory of molecular and protein association, aggregation, and cellular crowding

J. Chem. Phys. 131, 165101 (2009); doi:10.1063/1.3253299

Published 26 October 2009

You are not logged in to this journal. Log in

Moon Bae Gee and Paul E. Smith
Department of Chemistry, 213 CBC Building, Kansas State University, Manhattan, Kansas 66506-0401, USA
An analysis of the effect of a cosolvent on the association of a solute in solution using the Kirkwood–Buff theory of solutions is presented. The approach builds on the previous results of Ben-Naim by extending the range of applicability to include any number of components at finite concentrations in both closed and semiopen systems. The derived expressions, which are exact, provide a foundation for the analysis and rationalization of cosolvent effects on molecular and biomolecular equilibria including protein association, aggregation, and cellular crowding. A slightly different view of cellular crowding is subsequently obtained. In particular, it is observed that the addition of large cosolvents still favors the associated form even when traditional excluded volume effects are absent. ©2009 American Institute of Physics
History: Received 27 April 2009; accepted 1 October 2009; published 26 October 2009
Permalink: http://link.aip.org/link/?JCPSA6/131/165101/1
BUY THIS ARTICLE   (US$24)
Download HTML Download Sectioned HTML Download PDF (261 kB) View Cart

KEYWORDS and PACS

Keywords
PACS
  • 87.15.nr
    Aggregation in biological macromolecular solutions
  • 87.16.-b
    Subcellular structure and processes
  • 87.15.R-
    Biochemical reactions and kinetics
  • YEAR: 2009

RELATED DATABASES


To view database links for this article,
you need to log in.
To view database links for this article,
you need to log in.

PUBLICATION DATA

ISSN:
0021-9606 (print)   1089-7690 (online)
Publisher:
AIP is a member of CrossRef AIP

REFERENCES (60)
View in Separate Window/Tab
For access to fully linked references, you need to log in. For access to fully linked references, you need to Log in.
  1. P. van den Berg, E. W. Chung, C. V. Robinson, P. L. Mateo, and C. M. Dobson, EMBO J. 18, 4794 (1999).
  2. H. X. Zhou and K. A. Dill, Biochemistry 40, 11289 (2001).
  3. M. S. Cheung, D. Klimov, and D. Thirumalai, Proc. Natl. Acad. Sci. U.S.A. 102, 4753 (2005).
  4. R. J. Ellis and A. P. Minton, Biol. Chem. 387, 485 (2006).
  5. K. Richter, M. Nessling, and P. Lichter, Biochim. Biophys. Acta 1783, 2100 (2008).
  6. H. X. Zhou, G. N. Rivas, and A. P. Minton, Annual Review of Biophysics 37, 375 (2008).
  7. L. A. Munishkina, A. Ahmad, A. L. Fink, and V. N. Uversky, Biochemistry 47, 8993 (2008).
  8. C. M. Dobson, Nature (London) 426, 884 (2003).
  9. C. A. Ross and M. A. Poirier, Nat. Med. 10, S10 (2004).
  10. S. N. Timasheff, Adv. Protein Chem. 51, 355 (1998).
  11. J. Wyman and S. J. Gill, Binding and Linkage (University Science Books, Mill Valley, California, 1990).
  12. C. Tanford, Adv. Protein Chem. 24, 1 (1970).
  13. J. A. Schellman, Biopolymers 17, 1305 (1978).
  14. V. Pierce, M. Kang, M. Aburi, S. Weerasinghe, and P. E. Smith, Cell Biochem. Biophys. 50, 1 (2008).
  15. T. L. Hill, J. Chem. Phys. 34, 1974 (1961).
  16. C. Tanford, Proc. Natl. Acad. Sci. U.S.A. 71, 1811 (1974).
  17. F. H. Stillinger and A. Ben-Naim, J. Chem. Phys. 74, 2510 (1981).
  18. A. P. Minton, Mol. Cell. Biochem. 55, 119 (1983).
  19. A. P. Minton, G. C. Colclasure, and J. C. Parker, Proc. Natl. Acad. Sci. U.S.A. 89, 10504 (1992).
  20. A. P. Minton, Biophys. J. 63, 1090 (1992).
  21. V. A. Parsegian, R. P. Rand, and D. C. Rau, Proc. Natl. Acad. Sci. U.S.A. 97, 3987 (2000).
  22. S. B. Zimmerman and A. P. Minton, Annu. Rev. Biophys. Biomol. Struct. 22, 27 (1993).
  23. H. X. Zhou, Proteins 72, 1109 (2008).
  24. M. Wojciehowski and M. Cieplak, Biosystems 94, 248 (2008).
  25. J. G. Kirkwood and F. P. Buff, J. Chem. Phys. 19, 774 (1951).
  26. A. Ben-Naim, Molecular Theory of Solutions (Oxford University Press, New York, 2006).
  27. M. Aburi and P. E. Smith, J. Phys. Chem. B 108, 7382 (2004).
  28. M. Kang and P. E. Smith, Fluid Phase Equilib. 256, 14 (2007).
  29. P. E. Smith, Biophys. J. 91, 849 (2006).
  30. S. Shimizu and C. L. Boon, J. Chem. Phys. 121, 9147 (2004).
  31. S. Shimizu, W. M. McLaren, and N. Matubayasi, J. Chem. Phys. 124, 234905 (2006).
  32. I. L. Shulgin and E. Ruckenstein, J. Chem. Phys. 123, 054909 (2005).
  33. D. Trzesniak, N. F. A. Van Der Vegt, and W. F. van Gunsteren, Mol. Phys. 105, 33 (2007).
  34. J. Rosgen, B. M. Pettitt, and D. W. Bolen, Protein Sci. 16, 733 (2007).
  35. P. E. Smith, J. Phys. Chem. B 103, 525 (1999).
  36. R. Chitra and P. E. Smith, J. Phys. Chem. B 105, 11513 (2001).
  37. S. Shimizu, Proc. Natl. Acad. Sci. U.S.A. 101, 1195 (2004).
  38. S. Shimizu and N. Matubayasi, Chem. Phys. Lett. 420, 518 (2006).
  39. E. Matteoli and G. A. Mansoori, Fluctuation Theory of Mixtures (Taylor & Francis, New York, 1990).
  40. Y. Marcus, Monatsch. Chem. 132, 1387 (2001).
  41. A. Ben-Naim, A. M. Navarro, and J. M. Leal, Phys. Chem. Chem. Phys. 10, 2451 (2008).
  42. J. Roesgen, in Methods in Molecular Biology, edited by J. W. Shriver (Humana, New York, 2009), Vol. 490, Chap. 9, pp. 195–225.
  43. A. Ben-Naim, J. Chem. Phys. 63, 2064 (1975).
  44. D. G. Hall, in Thermodynamics of Micellar Solutions, edited by E. Wyn-Jones and J. Gormally (Elsevier, Amsterdam, 1983), Vol. 26, Chap. 2, pp. 7–69.
  45. M. Kang and P. E. Smith, J. Chem. Phys. 128, 244511 (2008).
  46. A. Ben-Naim, Statistical Thermodynamics for Chemists and Biochemists (Plenum, New York, 1992).
  47. P. E. Smith, J. Phys. Chem. B 108, 18716 (2004).
  48. D. G. Hall, Trans. Faraday Soc. 67, 2516 (1971).
  49. I. Prigogine and R. Defay, Chemical Thermodynamics (Longmans, London, 1954).
  50. P. E. Smith, J. Chem. Phys. 129, 124509 (2008).
  51. C. A. Royer, Biochim. Biophys. Acta 1595, 201 (2002).
  52. P. E. Smith, Biophys. Chem. 113, 299 (2005).
  53. J. A. Schellman, Biophys. Chem. 96, 91 (2002).
  54. K. C. Aune and C. Tanford, Biochemistry 8, 4586 (1969).
  55. G. I. Makhatadze, J. Phys. Chem. B 103, 4781 (1999).
  56. R. F. Greene, Jr., and C. N. Pace, J. Biol. Chem. 249, 5388 (1974).
  57. S. Shimizu, J. Chem. Phys. 120, 4989 (2004).
  58. J. K. Myers, C. N. Pace, and J. M. Scholtz, Protein Sci. 4, 2138 (1995).
  59. D. K. Klimov, J. E. Straub, and D. Thirumalai, Proc. Natl. Acad. Sci. U.S.A. 101, 14760 (2004).
  60. N. J. Nosworthy and A. Ginsburg, Protein Sci. 6, 2617 (1997).

CITING ARTICLES
For access to citing articles, you need to log in.
For access to citing articles, you need to Log in.


Copyright © American Institute of Physics