Deficiency of the Coulomb-field approximation in the generalized Born model: An improved formula for born radii evaluation

Journal of Chemical Physics

Volumn 119, Issue 9, 2003, Pages 4817-4826

  Grycuk, Tomasz ^a  

^a UNIVERSITY OF WARSAW   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

BIOPOLYMERS; COULOMB BLOCKADE; ELECTROSTATICS; ENTHALPY; MATHEMATICAL MODELS;

BORN MODEL; BORN RADII; COULOMB FIELD APPROXIMATION;

MOLECULAR DYNAMICS;

EID: 0141453063     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.1595641     Document Type: Article

References (36)

1. D. Bashford and M. Karplus, Biochemistry 29, 10219 (1990).
2. C. Lim, D. Bashford, and M. Karplus, J. Phys. Chem. 95, 5610 (1991).
3. A. Yang, M. Gunner, R. Sampogna, K. Sharp, and B. Honig, Proteins: Struct., Funct., Genet. 15, 252 (1993).
4. J. Antosiewicz, J. M. Briggs, A. E. Elcock, M. K. Gilson, and J. A. McCammon, J. Comput. Chem. 17, 1633 (1996).
5. H.-X. Zhou and M. Vijayakumar, J. Mol. Biol. 267, 1002 (1997).
6. T. Grycuk, J. Phys. Chem. B 106, 1434 (2002).
7. E. J. Verwey and J. T. G. Overbeek, Theory of the Stability of Lyophobic Colloids (Elsevier, Amsterdam, 1948).
8. S. Alexander, P. M. Chaikin, P. Grant, G. J. Morales, and P. Pincus, J. Chem. Phys. 80, 5776 (1984).
9. N. Ben-Tal, B. Honig, R. M. Peitzch, G. Denisov, and S. McLaughlin, Biophys. J. 71, 561 (1996).
10. N. Ben-Tal, B. Honig, C. Miller, and S. McLaughlin, Biophys. J. 73, 1717 (1997).
11. D. Murray, N. Ben-Tal, B. Honig, and S. McLaughlin, Structure (London) 5, 985 (1997).
12. D. Murray, L. Hermida-Matsumoto, C. A. Buser, J. Tsang, C. Sigal, N. Ben-Tal, B. Honig, M. D. Resh, and S. McLaughlin, Biochemistry 37, 2145 (1998).
13. D. Murray, A. Arbuzova, G. Hangyás-Mihályne, A. Gambhir, N. Ben-Tal, B. Honig, and S. McLaughlin, Biophys. J. 77, 3176 (1999).
14. B. Jayaram and D. L. Beveridge, Annu. Rev. Biophys. Biomol. Struct. (1996).
15. V. K. Misra, J. L. Hecht, K. A. Sharp, R. A. Friedman, and B. Honig, J. Mol. Biol. 238, 264 (1994).
16. K. A. Sharp, R. A. Friedman, V. Misra, J. Hecht, and B. Honig, Biopolymers 36, 245 (1995).
17. M. K. Gilson and B. Honig, Proteins: Struct., Funct., Genet. 4, 7 (1988).
18. S. C. Harvey, Proteins: Struct., Funct., Genet. 5, 78 (1989).
19. A. S. Yang and B. Honig, Curr. Opin. Struct. Biol. 2, 40 (1992).
20. M. K. Gilson, M. E. Davis, B. A. Luty, and J. A. McCammon, J. Phys. Chem. 97, 3591 (1993).
21. D. Sitkoff, K. A. Sharp, and B. Honig, J. Phys. Chem. 98, 1978 (1994).
22. B. V. Derjaguin and L. Landau, Acta Physicochim. URSS 14, 633 (1941).
23. Y. Levin, M. C. Barbosa, and M. N. Tamashiro, Europhys. Lett. 41, 123 (1998).
24. R. Constanciel and R. Contreras, Theor. Chim. Acta 65, 111 (1984).
25. W. C. Still, A. Tempczyk, R. C. Hawlely, and T. Hendrickson, J. Am. Chem. Soc. 112, 6127 (1990).
26. D. Bashford and D. A. Case, Annu. Rev. Phys. Chem. 51, 129 (2000).
27. M. Born, Z. Phys. 1, 45 (1920).
28. J. G. Kirkwood, J. Chem. Phys. 2, 351 (1934).
29. C. Tanford and J. G. Kirkwood, J. Am. Chem. Soc. 79, 5333 (1957).
30. E. M. Lifshitz, L. P. Pitaevskii, and L. D. Landau, Electrodynamics of Continuous Media, 2nd ed. (Elsevier Science, New York, 1985).
31. M. Davis, J. Madura, B. Luty, and J. McCammon, Comput. Phys. Commun. 62, 187 (1991).
32. J. Madura, J. Briggs, R. Wade et al., Comput. Phys. Commun. 91, 57 (1995).
33. J. H. Conway and N. J. A. Sloane, Sphere Packings, Lattices, and Groups, 2nd ed. (Springer, New York, 1993).
34. C. Zong and J. Talbot, Sphere Packings (Springer, New York, 1999).
35. M. L. Connolly, J. Appl. Crystallogr. 16, 548 (1983).
36. M. L. Connolly, Science 221, 709 (1983).