Two-dimensional distributions of activation enthalpy and entropy from kinetics by the maximum entropy method

Biophysical Journal

Volumn 70, Issue 3, 1996, Pages 1521-1528

  Steinbach, Peter J ^a  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON MONOXIDE; LIGAND; MYOGLOBIN;

ALGORITHM; ARTICLE; CALCULATION; ENTHALPY; ENTROPY; INFRARED RADIATION; KINETICS; LIGAND BINDING; SIMULATION; TEMPERATURE;

EID: 0030058805     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-3495(96)79714-X     Document Type: Article

References (31)

1. Agmon, N., and J. J. Hopfield. 1983. CO binding to heme proteins: a model for barrier height distributions and slow conformational changes. J. Chem. Phys. 79:2042-2053.
2. Alberding, N., R. H. Austin, S. S. Chan, L. Eisenstein, H. Frauenfelder, I. C. Gunsalus, and T. M. Nordlund. 1976 Dynamics of carbon monoxide binding to protoheme. J. Chem. Phys. 65:4701-4711.
3. Alberding, N., S. S. Chan, L. Eisenstein, H. Frauenfelder, D. Good, I. C. Gunsalus, T. M. Nordlund, M. F. Perutz, A. H. Reynolds, L. B. Sorensen. 1978. Binding of carbon monoxide to isolated hemoglobin chains. Biochemistry. 17:43-51.
4. Ansari, A., J. Berendzen, S. F. Bowne, H. Frauenfelder, I. E. T. Iben, T. B. Sauke, E. Shyamsunder, and R. D. Young. 1985. Protein states and proteinquakes. Proc. Natl. Acad. Sci. USA. 82:5000-5004.
5. Ansari, A., J. Berendzen, D. Braunstein, B. R. Cowen, H. Frauenfelder, M. K. Hong, I. E. T. Iben, J. B. Johnson, P. Ormos, T. B. Sauke, R. Scholl, A. Schulte, P. J. Steinbach, J. Vittitow, and R. D. Young 1987. Rebinding and relaxation in the myoglobin pocket. Biophys. Chem. 26:337-355.
6. Austin, R. H., K. W Beeson, L. Eisenstein, H. Frauenfelder, and I. C, Gunsalus. 1975. Dynamics of hgand binding to myoglobm. Biochemistry. 14:5355-5373.
7. Bajzer, Ž., and F. G. Prendergast, 1993. A model for multiexponential tryptophan fluorescence intensity decay in proteins. Biophys. J. 65: 2313-2323.
8. Berendzen, J., and D. Braunstein. 1990. Temperature-derivative spectroscopy: a tool for protein dynamics. Proc. Natl. Acad. Sci. USA. 87:1-5.
9. Cornwell, T. J., and K. F. Evans. 1985. A simple maximum entropy deconvolution algorithm. Astron. Astrophys. 143:77-83.
10. Dlott, D. D , H. Frauenfelder, P. Langer, H. Roder, and E. E. Dilorio 1983 Nanosecond flash photolysis study of carbon monoxide binding to the β chain of hemoglobin Zürich [β63(E7)His → Arg]. Proc. Nail. Acad. Sci. USA. 80:6239-6243.
11. Dongarra, J. J., J. R. Bunch, C. B. Moler, and G. W. Stewart 1979. LINPACK Users' Guide. SIAM. Philadelphia
12. Ehrenstein, D.. and G. U. Nienhaus. 1992. Conformational substates in azurin. Proc. Natl. Acad. Sci. USA. 89:9681-9685.
13. Frauenfelder, H., F. Parak, and R. D. Young. 1988. Conformational substates in proteins. Annu. Rev. Biophys. Biophys. Chem. 17:451-479.
14. Gull, S. F. 1989 Developments in maximum entropy data analysis. In Maximum Entropy and Bayesian Methods. J. Skilling, editor. Kluwer Academic, Norwell, MA. 53-71.
15. Gull, S. F., and J. Skilling. 1984. Maximum entropy method in image processing. IEE Proc. 131F:646-659.
16. Hagen, S. J., J. Hofrichter, and W. A. Eaton. 1995. Protein reaction kinetics in a room-temperature glass. Science. 269:959-962.
17. Krug, R. R., W. G. Hunter, and R. A. Grieger. 1976. Statistical interpretation of enthalpy-entropy compensation. Nature. 261:566-567.
18. Kungl, A. J , A. J. W. G. Visser, H. R Kauffmann, and M. Breitenbch. 1994. Time-resolved fluorescence studies of dityrosine in the outer layer of intact yeast ascospores. Biophys. J. 67:309-317.
19. Lambright, D. G., S. Balasubramanian, and S. G. Boxer. 1993. Dynamics of protein relaxation in site-specific mutants of human myoglobin. Biochemistry. 32:10116-10124.
20. Lavalette, D., C. Tetreau, J.-C. Brochon, and A. Livesey. 1991. Conformational fluctuations and protein reactivity: determination of the rate constant spectrum and consequences in elementary biochemical processes. Eur. J. Biochem. 1956:591-598.
21. Livesey, A. K., and J. C. Brochon. 1987, Analyzing the distribution of decay constants in pulse-fluorimetry using the maximum entropy method. Biophys. J. 52:693-706.
22. Miers, J. B., J. C. Postlewaite, B R Cowen, G. R. Roemig. I-Y. S. Lee, and D.D. Dlott. 1991. Preexponential-limited solid state chemistry: ultrafast rebinding of a heme-ligand complex in a glass or protein matrix. J. Chem. Phys. 94:1825-1836.
23. Panchenko, A. R., J. Wang, G. U. Nienhaus, and P. G Wolynes. 1995. Analysis of ligand binding to heme proteins using a fluctuating path description. J. Phys. Chem. 99:9278-9282.
24. Press, W. H., S. A. Teukoisky, W. T. Vetterling, and B. P. Flannery. 1992. Numerical Recipes in Fortran, 2nd ed. Cambridge University Press, Cambridge.
25. Skilling, J 1989. Classic maximum entropy. In Maximum Entropy and Bayesian Methods. J. Skilling, editor. Kluwer Academic, Norwell. MA. 45-52.
26. Skilling, J., and R. K. Bryan. 1984. Maximum entropy image reconstruction: general algorithm. Mon. Notices R. Astron. Soc. 211: 111-124.
27. Šrajer, V., L. Reinisch, and P.M. Champion. 1988. Protein fluctuations, distributed coupling, and the binding of ligands to heme proteins. J. Am. Chem. Soc. 110.6656-6670.
28. Stein, D. L 1985. A model of protein conformatisonal substates Proc. Nail. Acad Sci. USA. 82:3670-3672.
29. Steinbach, P. J., A. Ansari, J. Berendzen, D Braunstein, K. Chu, B. R Cowen, D. Ehrenstein, H. Frauenfelder, J. B. Johnson, D. C. Lamb, S. Luck, J. R. Mourant, G. U. Nienhaus, P. Ormos, R. Philipp, A. Xie, and R. D Young. 1991. Ligand binding to heme proteins: connection between dynamics and function. Biochemistry. 30:3988-4001.
30. Steinbach, P. J., K. Chu, H. Frauenfelder, J. B. Johnson, D. C. Lamb, G. U. Nienhaus, T. B. Sauke, and R. D. Young. 1992. Determination of rate distributions from kinetic experiments Biophys. J 61:235-245.
31. Young, R. D., and S. F. Bowne. 1984 Conformational substates and barrier height distributions in ligand binding to heme proteins. J. Chem. Phys. 81:3730-3737.