Structural and kinetic study of the extended active site for proton transfer in human carbonic anhydrase II

Biochemistry

Volumn 49, Issue 30, 2010, Pages 6394-6399

  Domsic, John F ^a   Williams, Wilton ^a   Fisher, Suzanne Z ^a   Tu, Chingkuang ^a   Agbandje Mckenna, Mavis ^a   Silverman, David N ^a   McKenna, Robert ^a  

^a UNIVERSITY OF FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVE SITE; BOUND WATER MOLECULES; BOUND WATERS; BULK SOLVENTS; CATALYTIC EFFECTS; CONICAL CAVITY; HUMAN CARBONIC ANHYDRASE II; HYDROGEN BONDED NETWORK; KINETIC STUDY; MAXIMAL VELOCITY; PROTON SHUTTLE; SIDE CHAINS; WATER NETWORKS; WILD TYPES;

CARBONIC ANHYDRASE; CONFORMATIONS; PROTON TRANSFER; RATE CONSTANTS; SOLVENTS;

ZINC;

ALANINE; ASPARTIC ACID; CARBONATE DEHYDRATASE II; GLUTAMINE; HISTIDINE; LYSINE; ZINC;

ARTICLE; CONFORMATIONAL TRANSITION; ENZYME ACTIVE SITE; ENZYME CONFORMATION; ENZYME KINETICS; ENZYME STRUCTURE; MUTATION; PRIORITY JOURNAL; PROTON TRANSPORT; SITE DIRECTED MUTAGENESIS; STRUCTURE ANALYSIS; WILD TYPE;

AMINO ACID SUBSTITUTION; CARBONIC ANHYDRASE II; CATALYTIC DOMAIN; HUMANS; HYDROGEN BONDING; KINETICS; PROTEIN CONFORMATION; PROTONS; WATER; ZINC;

EID: 77955016875     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi1007645     Document Type: Article

References (26)

1. Steiner, H., Jonsson, B. H., and Lindskog, S. (1975) Catalytic mechanism of carbonic-anhydrase - Hydrogen-isotope effects on kinetic-parameters of human C isoenzyme Eur. J. Biochem. 59, 253-259
2. Tu, C. K., Silverman, D. N., Forsman, C., Jonsson, B. H., and Lindskog, S. (1989) Role of histidine 64 in the catalytic mechanism of human carbonic anhydrase II studied with a site-specific mutant Biochemistry 28, 7913-7918
3. Liljas, A., Lovgren, S., Bergsten, P. C., Carlbom, U., Petef, M., Waara, I., Strandbe., B, Fridborg, K., Jarup, L., and Kannan, K. K. (1972) Crystal-structure of human carbonic anhydrase-C Nat. New Biol. 235, 131-137
4. Nair, S. K. and Christianson, D. W. (1991) Unexpected pH-dependent conformation of His-64, the proton shuttle of carbonic anhydrase-II J. Am. Chem. Soc. 113, 9455-9458
5. Fisher, Z., Hernandez Prada, J. A., Tu, C., Duda, D., Yoshioka, C., An, H., Govindasamy, L., Silverman, D. N., and McKenna, R. (2005) Structural and kinetic characterization of active-site histidine as a proton shuttle in catalysis by human carbonic anhydrase II Biochemistry 44, 1097-1105
6. Jude, K. M., Wright, S. K., Tu, C., Silverman, D. N., Viola, R. E., and Christianson, D. W. (2002) Crystal structure of F65A/Y131C-methylimidazole carbonic anhydrase V reveals architectural features of an engineered proton shuttle Biochemistry 41, 2485-2491
7. Silverman, D. N. and McKenna, R. (2007) Solvent-mediated proton transfer in catalysis by carbonic anhydrase Acc. Chem. Res. 40, 669-675
8. Mikulski, R. L. and Silverman, D. N. (2010) Proton transfer in catalysis and the role of proton shuttles in carbonic anhydrase Biochim. Biophys. Acta 1804, 422-426
9. Krebs, J. F., Fierke, C. A., Alexander, R. S., and Christianson, D. W. (1991) Conformational mobility of His-64 in the Thr200Ser mutant of human carbonic anhydrase-II Biochemistry 30, 9153-9160
10. Fisher, S. Z., Tu, C. K., Bhatt, D., Govindasamy, L., Agbandje-McKenna, M., McKenna, R., and Silverman, D. N. (2007) Speeding up proton transfer in a fast enzyme: kinetic and crystallographic studies on the effect of hydrophobic amino acid substitution in the active site of human carbonic anhydrase II Biochemistry 42, 3803-3813
11. Hewett-Emmett, D. and Tashian, R. E. (1996) Functional diversity, conservation, and convergence in the evolution of the alpha-, beta-, and gamma-carbonic anhydrase gene families Mol. Phylogenet. Evol. 5, 50-77
12. Khalifah, R. G., Strader, D. J., Bryant, S. H., and Gibson, S. M. (1977) C-13 nuclear magnetic-resonance probe of active-site ionizations in human carbonic-anhydrase B Biochemistry 16, 2241-2247
13. Silverman, D. N. (1982) Carbonic anhydrase: oxygen-18 exchange catalyzed by an enzyme with rate-contributing proton-transfer steps Methods Enzymol. 87, 732-752
14. Gould, S. M. and Tawfik, D. S. (2005) Directed evolution of the promiscuous esterase activity of carbonic anhydrase II Biochemistry 44, 5444-5452
15. Verpoorte, J. A., Mehta, S., and Edsall, J. T. (1967) Esterase activities of human carbonic anhydrases B and C J. Biol. Chem. 242, 4221-4229
16. Khalifah, R. G. (1971) Carbon dioxide hydration activity of carbonic anhydrase. 1. Stop-flow kinetic studies on native human isoenzyme-B and isoenzyme-C J. Biol. Chem. 246, 2561-2573
17. Otwinowski, Z. and Minor, W. (1997) Processing of X-ray diffraction data collected in oscillation mode Methods Enzymol. 276, 307-326
18. Murshudov, G. N., Vagin, A. A., and Dodson, E. J. (1997) Refinement of macromolecular structures by the maximum-likelihood method Acta Crystallogr., Sect. D: Biol. Crystallogr. 53, 240-255
19. Brunger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren, G. L. (1998) Crystallography & NMR system: a new software suite for macromolecular structure determination Acta Crystallogr., Sect. D: Biol. Crystallogr. 54, 905-921
20. Emsley, P. and Cowtan, K. (2004) Coot: model-building tools for molecular graphics Acta Crystallogr., Sect. D: Biol. Crystallogr. 60, 2126-2132
21. Lindskog, S. (1997) Structure and mechanism of carbonic anhydrase Pharmacol. Ther. 74, 1-20
22. Duda, D., Tu, C. K., Qian, M. Z., Laipis, P., Agbandje-McKenna, M., Silverman, D. N., and McKenna, R. (2001) Structural and kinetic analysis of the chemical rescue of the proton transfer function of carbonic anhydrase II Biochemistry 40, 1741-1748
23. Fisher, S. Z., Maupin, C. M., Budayova-Spano, M., Govindasamy, L., Tu, C., Agbandje-McKenna, M., Silverman, D. N., Voth, G. A., and McKenna, R. (2007) Atomic crystal and molecular dynamics simulation structures of human carbonic anhydrase II: insights into the proton transfer mechanism Biochemistry 46, 2930-2937
24. Zheng, J. Y., Avvaru, B. S., Tu, C., McKenna, R., and Silverman, D. N. (2008) Role of hydrophilic residues in proton transfer during catalysis by human carbonic anhydrase II Biochemistry 47, 12028-12036
25. Maupin, C. M., McKenna, R., Silverman, D. N., and Voth, G. A. (2009) Elucidation of the proton transport mechanism in human carbonic anhydrase II J. Am. Chem. Soc. 131, 7598-7608
26. Riccardi, D., Konig, P., Guo, H., and Cui, Q. (2008) Proton transfer in carbonic anhydrase is controlled by electrostatics rather than the orientation of the acceptor Biochemistry 47, 2369-2378