Electrostatic contributions to the stability of hyperthermophilic proteins

Journal of Molecular Biology

Volumn 289, Issue 5, 1999, Pages 1435-1444

  Xiao, Li ^a   Honig, Barry ^a  

^a Och Spine at New York Presbyterian Hospitals   (United States)

Author keywords

Continuum electrostatics; Electrostatics; Hyperthermophiles; Ion pairs; Thermostability

Indexed keywords

AMINO ACID; FERREDOXIN; GLUTAMATE DEHYDROGENASE; GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE;

ARTICLE; ELECTRICITY; ENERGY COST; IONIZATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; PROTEIN STABILITY; PROTEIN TERTIARY STRUCTURE; THERMOPHILIC BACTERIUM;

BACTERIA (MICROORGANISMS);

EID: 0033603392     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1999.2810     Document Type: Article

References (34)

1. Adams M. W. W., Kletzin A. Oxidoreductase-type enzymes and redox proteins involved in fermentative metabolisms of hyperthermophilic archaea. Advan. Protein Chem. 48:1996;101-180.
2. Barlow D., Thornton J. Ion-pairs in proteins. J. Mol. Biol. 168:1983;867-885.
3. Cavagnero S., Debe D. A., Zhou Z. H., Adams M. W. W., Chan S. I. Kinetic role of electrostatic interactions in the unfolding of hyperthermophilic and mesophilic rubredoxins. Biochemistry. 37:1998;3369-3376.
4. Dao-pin S., Sauer U., Nicholson H., Matthews B. W. Contributions of engineered surface salt bridged to the stability of T4 lysozyme determined by directed mutagenesis. Biochemistry. 30:1991;7142-7153.
5. DeDecker B. S., O'Brien R., Fleming P. J., Geiger J. H., Jackson S. P., Sigler P. B. The crystal structure of a hyperthermophilic archaeal TATA-box binding protein. J. Mol. Biol. 264:1996;1072-1084.
6. Elcock A. H. The stability of salt bridges at high temperatures: implications for hyperthermophilic proteins. J. Mol. Biol. 284:1998;489-502.
7. Gilson M., Sharp K. A., Honig B. Calculating the electrostatic potential of molecules in solution: method and error assessment. J. Comput. Chem. 9:1987;327-335.
8. Goldman A. How to make my blood boil. Structure. 3:1995;1277-1279.
9. Hendsch Z., Tidor B. Do salt bridges stabilize proteins? A continuum electrostatics analysis. Protein Sci. 3:1994;211-226.
10. Hennig M., Darimont B., Sterner R., Kirschner K., Jansonius J. N. 2.0 Å structure of indole-3-glycerol phosphate synthase from the hyperthermophile sulfolobus solfataricus: possible determinants of protein stability. Structure. 3:1995;1295-1306.
11. Honig B., Yang A.-S. Free energy balance in protein folding. Advan. Protein. Chem. 46:1995;27-56.
12. Jaenicke R., Schurig H., Beaucamp N., Ostendorp R. Structure and stability of hyperstable proteins: glycolytic enzymes from hyperthermophilic bacterium thermotoga maritima. Advan. Protein Chem. 48:1996;181-269.
13. Korndorfer I., Steipe B., Huber R., Tomschy A., Jaenicke R. The crystal structure of holo-glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic bacteriumThermotoga maritima at 2.5 Å resolution. J. Mol. Biol. 246:1995;511-521.
14. Korolev S., Nayal M., Barnes W. M., Cera E. D., Waksman G. Crystal structure of the large fragment of thermus aquaticus DNA polymerase I at 2.5 Å resolution: structural basis for thermostability. Proc. Natl Acad. Sci. USA. 92:1995;9264-9268.
15. Lide D. R. Editor of CRC Handbook of Chemistry and Physics. 1991;CRC Press, Boca Raton.
16. Lim J., Yu Y. G., Han Y. S., Cho S., Ahn B., Kim S., Cho Y. The crystal structure of an Fe-superoxide dismutase from the hyperthermophile aquifex pyrophilus at 1.9 Å resolution: structural basis for thermostability. J. Mol. Biol. 270:1997;259-274.
17. Lounnas V., Wade R. C. Exceptionally stable salt bridges in cytochrome P450cam have functional roles. Biochemistry. 36:1997;5402-5417.
18. Macedo-Ribeiro S., Darimont B., Sterner R., Huber R. Small structural changes account for the high thermostability of 1[4Fe-4S] ferredoxin from the hyperthermophilic bacterium Thermotoga maritima. Structure. 4:1996;1291-1301.
19. Nicholls A., Honig B. A rapid finite difference algorithm utilizing successive over-relaxation to solve the Poisson-Boltzmann equation. J. Comput. Chem. 12:1991;435-445.
20. Petukhov M., Kil Y., Kuramitsu S., Lanzov V. Insights into thermal resistance of proteins from the intrinsic stability of their α helices. Proteins: Struct. Funct. Genet. 29:1997;309-320.
21. Rice D. W., Yip K. S. P., Stillman T. J., Britton K. L., Fuentes A., Connerton I., Pasquo A., Scandurra R., Engel P. C. Insights into the molecular basis of thermal stability from the structure determination of pyrococcus fruiosus glutamate dehydrogenase. FEMS Microbiol. Rev. 18:1996;105-117.
22. Sitkoff D., Sharp K. A., Honig B. Accurate calculations of hydration free energies using macroscopic solvent models. J. Phys. Chem. 98:1994;1978-1988.
23. Sridharan S., Nicholls A., Honig B. A new vertex algorithm to calculate solvent accessible surface areas. Biophys. J. 61:1992;A174.
24. Sridharan S., Nicholls A., Sharp K. A. A rapid method for calculating derivatives of solvent accessible surface areas of molecules. J. Comput. Chem. 16:1995;1038-1044.
25. Tanner J. J., Hecht R. M., Krause K. A. Determinants of enzyme thermostability observed in the molecular structure of thermus aquaticus D -Glyceraldehyde-3-phosphate dehydrogenase at 2.5 Å Biochemistry. 35:1996;2597-2609.
26. Usher K. C., Cruz A. F., Dahlquist F. W., Swanson R. V., Simon M. I., Remington S. H. Crystal structures of CheY from Thermotoga maritima do not support conventional explanations for the structural basis of enhanced thermostability. Protein Sci. 7:1998;403-412.
27. Vetriani C., Maeder D. L., Tolliday N., Yip K. S.-P., Stillman T. J., Britton K. L., Rice D. W., Klump H. H., Kobb F. T. Protein thermostability above 100 °C: a key role for ionic interactions. Proc. Natl Acad. Sci. USA. 95:1998;12300-12305.
28. Vogt G., Argos P. Protein thermal stability: hydrogen bonds or internal packing? Fold. Des. 2:1997;S40-S46.
29. Vogt G., Woell S., Argos P. Protein thermal stability, hydrogen bonds, and ion pairs. J. Mol. Biol. 269:1997;631-643.
30. Yang A.-S., Honig B. On the pH dependence of protein stability. J. Mol. Biol. 231:1993;459-474.
31. Yang A.-S., Honig B. Structural origins of pH and ionic strength effect so protein stability: acid denaturation of sperm whale apomyoglobin. J. Mol. Biol. 237:1994;602-614.
32. Yang A.-S., Honig b. Sequence to structure alignment in comparative modeling using PrISM. Proteins: Struct. Funct. Genet. 1999.
33. as in proteins. Proteins: Struct. Funct. Genet. 15:1993;252-265.
34. Yip K. S. P., Stillman T. J., Britton K. L., Artymiuk P. J., Baker P. J., Sedelniova S. E., Engel P. C., Pasquo A., Chiaraluce R., Consalvi V., Scandurra R., Rice D. W. The structure of Pyrococcus furiosus glutamate dehydrogenase reveals a key role for ion-pair networks in maintaining enzyme stability at extreme temperatures. Structure. 3:1995;1147-1158.