Monovalent and divalent salt effects on electrostatic free energies defined by the nonlinear Poisson-Boltzmann equation: Application to DNA binding reactions

Journal of Physical Chemistry B

Volumn 101, Issue 44, 1997, Pages 9113-9118

  Chen, Shu Wen W ^a   Honig, Barry ^a  

^a Columbia University ^*  (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBIOTICS; BINDING ENERGY; COMPOSITION EFFECTS; ELECTROSTATICS; FINITE DIFFERENCE METHOD; FREE ENERGY; MACROMOLECULES; MAGNESIUM COMPOUNDS; MOLECULAR STRUCTURE; PROTEINS; SODIUM CHLORIDE;

POISSON BOLTZMANN EQUATION;

DNA;

EID: 0031249752     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp971521k     Document Type: Article

References (36)

1. Rich, A.; Seeman, N.; Rosenberg, J. Nucleic Acid-Protein Recognition; Academic: New York, 1977.
2. Drew, H.; Takano, T.; Tanaka, S.; Ikatura, K.; Dickerson, R. Nature 1980, 286, 567.
3. Mitra, C.; Sarma, M.; Sarma, R. J. Am. Chem. Soc. 1981, 103, 6727.
4. Bacquet, R.; McCammon, J. J. Phys. Chem. 1988, 92, 7134.
5. Wilson, W.; Tanious, F.; Barton, H.; Jones, R.; Fox, K.; Wydra, R.; Strekowski, L. Biochemistry 1990, 29, 8452.
6. Misra, V.; Sharp, K.; Friedman, R.; Honig, B. J. Mol. Biol. 1994, 238, 245.
7. Senear, D.; Batey, R. Biochemistry 1991, 30, 6677.
8. Misra, V.; Hecht, J.; Sharp, K.; Friedman, R.; Honig, B. J. Mol. Biol. 1994, 238, 264.
9. Lohman, T.; deHaseth, P.; Record, T., Jr. Biochemistry 1980, 19, 3522.
10. deHaseth, P.; Lohman, T.; Record, T., Jr. Biochemistry 1977, 16, 4783.
11. Chen, S.-w.; Honig, B. Biophys. J. 1994, 66, A291.
12. Sharp, K.; Friedman, R.; Misra, V.; Hecht, J.; Honig, B. Biopolymers 1995, 36, 245-262.
13. Sharp, K. Biopolymers 1995, 36, 227-243.
14. Manning, G. J. Chem. Phys. 1969, 51, 3249.
15. Manning, G. Q. Rev. Biophys. II 1978, 2, 179.
16. Record, M., Jr; Anderson, C.; Lohman, T. Q. Rev. Biophys. II 1978, 2, 103.
17. Record, M., Jr: Lohman, T.; DeHaseth, P. J. Mol. Biol. 1976, 107, 145.
18. Gueron, M.; Weisbuch, G. Biopolymers 1980, 19, 353.
19. Olmsted, M. C.; Bond, J. P.; Anderson, C. F.; Record, T., Jr. Biophys. J. 1995, 68, 634-647.
20. Mills, P. Biophys. J. 1995, 68, 400-401.
21. Jayaram, B.; DiCapua, F.; Beveridge, D. J. Am. Chem. Soc. 1991, 113, 5211.
22. Hecht, J. L.; Honig, B.; Shin, Y.; Hubbell, W. J. Phys. Chem. 1995, 99, 7782-7786.
23. Misra, V.; Honig, B. Proc. Natl. Acad. Sci. U.S.A. 1995, 92, 4691-4695.
24. Sharp, K.; Honig, B. J. Phys. Chem. 1990, 94, 7684.
25. Ramanathan, G. J. Chem. Phys. 1986, 85, 2957.
26. Weisbuch, G.; Gueron, M. J. Phys. Chem. 1981, 85, 517.
27. McQuarrie, D. Statistical Mechanics; Harper & Row: New York, 1976.
28. Larsem, T.; Goodsell, D.; Cascio, D.; Grzeskowiak, K.; Dickerson, R. J. Biomol. Struct. Dyn. 1989, 7, 477.
29. Beamer, L.; Pabo, C. J. Mol. Biol. 1992, 227, 177.
30. Gilson, M.; Sharp, K.; Honig, B. J. Comput. Chem. 1988, 9, 327.
31. Sharp, K.; Honig, B. Chem. Scr. 1989, 29A, 71.
32. Klapper, I.; Hagstrom, R.; Fine, R.; Sharp, K.; Honig, B. Proteins 1986, 1, 47.
33. Biosym. Discover, 3.1 ed.; Biosym Technologies, Inc: San Diego, CA, 1993.
34. Hagler, A.; Stern, P.; Sharon, R.; Becker, J.; Naider, F. J. Am. Chem. Soc. 1979, 101, 6842.
35. Murthy, C.; Bacquet, R.; Rossky, P. J. Phys. Chem. 1985, 89, 701.
36. Record, M., Jr; DeHaseth, P.; Lohman, T. Biochemistry 1977, 16, 4791.