Characterization of CamH from Methanosarcina thermophila, founding member of a subclass of the γ class of carbonic anhydrases

Journal of Bacteriology

Volumn 192, Issue 5, 2010, Pages 1353-1360

  Zimmerman, Sabrina A ^a   Tomb, Jean Francois ^b   Ferry, James G ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b DUPONT COMPANY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BICARBONATE; BUFFER; CARBON DIOXIDE; CARBONATE DEHYDRATASE; HYDROGEN PEROXIDE; IMIDAZOLE; IRON; MONOMER; PROTON; ZINC;

AIR; ARTICLE; ASSAY; BACTERIAL GENE; CAMH GENE; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; ENZYME ACTIVE SITE; ESCHERICHIA COLI; GENE ACTIVITY; METHANOSARCINA; METHANOSARCINA THERMOPHILA; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTON TRANSPORT; VALIDATION STUDY;

AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; CARBONIC ANHYDRASES; CLONING, MOLECULAR; COENZYMES; DNA, BACTERIAL; ESCHERICHIA COLI; GENE EXPRESSION; IRON; KINETICS; METHANOSARCINA; MOLECULAR SEQUENCE DATA; PHYLOGENY; PROTEIN BINDING; PROTEIN MULTIMERIZATION; RECOMBINANT PROTEINS; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY; ZINC;

ESCHERICHIA COLI; METHANOSARCINA THERMOPHILA;

EID: 77749297980     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.01164-09     Document Type: Article

References (36)

1. Alber, B. E., C. M. Colangelo, J. Dong, C. M. V. Stålhandske, T. T. Baird, C. Tu, C. A. Fierke, D. N. Silverman, R. A. Scott, and J. G. Ferry. 1999. Kinetic and spectroscopic characterization of the gamma-carbonic anhydrase from the methanoarchaeon Methanosarcina thermophila. Biochemistry 38:13119-13128.
2. Alber, B. E., and J. G. Ferry. 1994. A carbonic anhydrase from the archaeon Methanosarcina thermophila. Proc. Nat. Acad. Sci. U. S. A. 91:6909-6913.
3. Alber, B. E., and J. G. Ferry. 1996. Characterization of heterologously produced carbonic anhydrase from Methanosarcina thermophila. J. Bacteriol. 178:3270-3274.
4. An, H., C. Tu, D. Duda, I. Montanez-Clemente, K. Math, P. J. Laipis, R. McKenna, and D. N. Silverman. 2002. Chemical rescue in catalysis by human carbonic anhydrases II and III. Biochemistry 41:3235-3242.
5. Dereeper, A., V. Guignon, G. Blanc, S. Audic, S. Buffet, F. Chevenet, J. F. Dufayard, S. Guindon, V. Lefort, M. Lescot, J. M. Claverie, and O. Gascuel. 2008. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 36:W465-W469.
6. Ferry, J. G. The γ class of carbonic anhydrase. Biochim. Biophys. Acta, in press.
7. Fisher, Z., J. A. H. Prada, C. Tu, D. Duda, C. Yoshioka, H. Q. An, L. Govindasamy, D. N. Silverman, and R. McKenna. 2005. Structural and kinetic characterization of active-site histidine as a proton shuttle in catalysis by human carbonic anhydrase II. Biochemistry 44:1097-1105.
8. Fu, X., L. J. Yu, L. Mao-Teng, L. Wei, C. Wu, and M. Yun-Feng. 2008. Evolution of structure in gamma-class carbonic anhydrase and structurally related proteins. Mol. Phylogenet. Evol. 47:211-220.
9. Galagan, J. E., C. Nusbaum, A. Roy, M. G. Endrizzi, P. Macdonald, W. FitzHugh, S. Calvo, R. Engels, S. Smirnov, D. Atnoor, A. Brown, N. Allen, J. Naylor, N. Stange-Thomann, K. DeArellano, R. Johnson, L. Linton, P. McEwan, K. McKernan, J. Talamas, A. Tirrell, W. Ye, A. Zimmer, R. D. Barber, I. Cann, D. E. Graham, D. A. Grahame, A. M. Guss, R. Hedderich, C. Ingram-Smith, H. C. Kuettner, J. A. Krzycki, J. A. Leigh, W. Li, J. Liu, B. Mukhopadhyay, J. N. Reeve, K. Smith, T. A. Springer, L. A. Umayam, O. White, R. H. White, E. C. de Macario, J. G. Ferry, K. F. Jarrell, H. Jing, A. J. Macario, I. Paulsen, M. Pritchett, K. R. Sowers, R. V. Swanson, S. H. Zinder, E. Lander, W. W. Metcalf, and B. Birren. 2002. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Res. 12:532-542.
10. Hewett-Emmett, D. 2000. Evolution and distribution of the carbonic anhydrase gene families, p. 29-76. In W. R. Chegwidden, N. D. Carter, and Y. H. Edwards (ed.), The carbonic anhydrases. Birkhauser Verlag, Basel, Switzerland.
11. Hovey, R., S. Lentes, A. Ehrenreich, K. Salmon, K. Saba, G. Gottschalk, R. P. Gunsalus, and U. Deppenmeier. 2005. DNA microarray analysis of Methanosarcina mazei Go1 reveals adaptation to different methanogenic substrates. Mol. Genet. Genomics 273:225-239.
12. Irving, H., and R. J. P. Williams. 1948. Order of stability of metal complexes. Nature 162:746-747.
13. Iverson, T. M., B. E. Alber, C. Kisker, J. G. Ferry, and D. C. Rees. 2000. A closer look at the active site of γ-carbonic anhydrases: high resolution crystallographic studies of the carbonic anhydrase from Methanosarcina thermophila. Biochemistry 39:9222-9231.
14. Jeyakanthan, J., S. Rangarajan, P. Mridula, S. P. Kanaujia, Y. Shiro, S. Kuramitsu, S. Yokoyama, and K. Sekar. 2008. Observation of a calcium-binding site in the γ-class carbonic anhydrase from Pyrococcus horikoshii. Acta Crystallogr. Sect. D Biol. Crystallogr. 64:1012-1019.
15. Karrasch, M., M. Bott, and R. K. Thauer. 1989. Carbonic anhydrase activity in acetate grown Methanosarcina barkeri. Arch. Microbiol. 151:137-142.
16. Khalifah, R. G. 1971. The carbon dioxide hydration activity of carbonic anhydrase. I. Stop-flow kinetic studies on the native human isoenzymes B and C. J. Biol. Chem. 246:2561-2573.
17. Kisker, C., H. Schindelin, B. E. Alber, J. G. Ferry, and D. C. Rees. 1996. A left-handed beta-helix revealed by the crystal structure of a carbonic anhydrase from the archaeon Methanosarcina thermophila. EMBO J. 15:2323-2330.
18. Macauley, S. R., S. A. Zimmerman, E. E. Apolinario, C. Evilia, Y. Hou, J. G. Ferry, and K. R. Sowers. 2009. The archetype γ-class carbonic anhydrase (Cam) contains iron when synthesized in vivo. Biochemistry 48:817-819.
19. Parisi, G., M. Fornasari, and J. Echave. 2000. Evolutionary analysis of γ-carbonic anhydrase and structurally related proteins. Mol. Phylogenet. Evol. 14:323-334.
20. Parisi, G., M. Perales, M. Fornasari, A. Colaneri, N. Schain, D. Casati, S. Zimmermann, A. Brennicke, A. Araya, J. G. Ferry, J. Echave, and E. Zabaleta. 2004. Gamma carbonic anhydrases in plant mitochondria. Plant Mol. Biol. 55:193-207.
21. Park, H., B. Song, and F. M. Morel. 2007. Diversity of the cadmium-containing carbonic anhydrase in marine diatoms and natural waters. Environ. Microbiol. 9:403-413.
22. Rowlett, R. S., C. Tu, M. M. McKay, J. R. Preiss, R. J. Loomis, K. A. Hicks, R. J. Marchione, J. A. Strong, G. S. Donovan, and J. E. Chamberlin. 2002. Kinetic characterization of wild-type and proton transfer-impaired variants of beta-carbonic anhydrase from Arabidopsis thaliana. Arch. Biochem. Biophys. 404:197-209.
23. Silverman, D. N., C. K. Tu, X. Chen, S. M. Tanhauser, A. J. Kresge, and P. J. Laipis. 1993. Rate-equilibria relationships in intramolecular proton transfer in human carbonic anhydrase-III. Biochemistry 32:10757-10762.
24. Silverman, D. N., and S. H. Vincent. 1983. Proton transfer in the catalytic mechanism of carbonic anhydrase. Crit. Rev. Biochem. 14:207-255.
25. Smith, K. S., and J. G. Ferry. 2000. Procaryotic carbonic anhydrases. FEMS Microbiol. Rev. 24:335-366.
26. Smith, K. S., C. Jakubzick, T. C. Whittam, and J. G. Ferry. 1999. Carbonic anhydrase is an ancient enzyme widespread in prokaryotes. Proc. Natl. Acad. Sci. U. S. A. 96:15184-15189.
27. Soto, A. R., H. Zheng, D. Shoemaker, J. Rodriguez, B. A. Read, and T. M. Wahlund. 2006. Identification and preliminary characterization of two cDNAs encoding unique carbonic anhydrases from the marine alga Emiliania huxleyi. Appl. Environ. Microbiol. 72:5500-5511.
28. Supuran, C. T. 2007. Carbonic anhydrases as drug targets - an overview. Curr. Top. Med. Chem. 7:825-833.
29. Tripp, B. C., C. B. Bell, F. Cruz, C. Krebs, and J. G. Ferry. 2004. A role for iron in an ancient carbonic anhydrase. J. Biol. Chem. 279:6683-6687.
30. Tripp, B. C., and J. G. Ferry. 2000. A structure-function study of a proton transport pathway in a novel γ-class carbonic anhydrase from Methanosarcina thermophila. Biochemistry 39:9232-9240.
31. Tripp, B. C., K. Smith, and J. G. Ferry. 2001. Carbonic anhydrase: new insights for an ancient enzyme. J. Biol. Chem. 276:48615-48618.
32. Tripp, B. C., C. Tu, and J. G. Ferry. 2002. Role of arginine 59 in the γ-class carbonic anhydrases. Biochemistry 41:669-678.
33. Tu, C., R. S. Rowlett, B. C. Tripp, J. G. Ferry, and D. N. Silverman. 2002. Chemical rescue of proton transfer in catalysis by carbonic anhydrases in the β- and γ-class. Biochemistry 41:15429- 15435.
34. Zabinski, R., E. Munck, P. M. Champion, and J. M. Wood. 1972. Kinetic and Mossbauer studies on the mechanism of protocatechuic acid 4,5-oxygenase. Biochemistry 11:3212-3219.
35. Zimmerman, S. A., and J. G. Ferry. 2008. The beta and gamma classes of carbonic anhydrase. Curr. Pharm. Des. 14:716-721.
36. Zimmerman, S. A., and J. G. Ferry. 2006. Proposal for a hydrogen bond network in the active site of the prototypic γ-class carbonic anhydrase. Biochemistry 45:5149-5157.