Methionine sulfoxide reductase from the hyperthermophilic archaeon Thermococcus kodakaraensis, an enzyme designed to function at suboptimal growth temperatures

Journal of Bacteriology

Volumn 189, Issue 19, 2007, Pages 7134-7144

  Fukushima, Eiji ^a   Shinka, Yasuhiro ^a   Fukui, Toshiaki ^a,b   Atomi, Haruyuki ^a   Imanaka, Tadayuki ^a  

^a KYOTO UNIVERSITY   (Japan)

^b TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DISSOLVED OXYGEN; METHIONINE SULFOXIDE; METHIONINE SULFOXIDE REDUCTASE; METHIONINE SULFOXIDE REDUCTASE A; METHIONINE SULFOXIDE REDUCTASE B; RECOMBINANT PROTEIN; THIOREDOXIN;

ARCHAEBACTERIUM; ARTICLE; BACTERIAL GENOME; BACTERIAL GROWTH; CATALYSIS; ENZYME ACTIVITY; ENZYME PURIFICATION; ENZYME STABILITY; HALF LIFE TIME; LOW TEMPERATURE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DOMAIN; REACTION TIME; THERMOCOCCUS; THERMOCOCCUS KODAKARAENSIS; THERMOSTABILITY;

AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; CATALYSIS; CIRCULAR DICHROISM; ENZYME STABILITY; GENE EXPRESSION REGULATION, ARCHAEAL; GENE EXPRESSION REGULATION, ENZYMOLOGIC; HYDROGEN-ION CONCENTRATION; KINETICS; MOLECULAR SEQUENCE DATA; OXIDOREDUCTASES; OXYGEN; RECOMBINANT PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SPECTROMETRY, FLUORESCENCE; STEREOISOMERISM; SUBSTRATE SPECIFICITY; TEMPERATURE; THERMOCOCCUS; TRYPTOPHAN; TYROSINE;

ARCHAEA; THERMOCOCCUS KODAKARENSIS;

EID: 34948861113     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.00751-06     Document Type: Article

References (49)

1. Amend, J. P., and E. L. Shock. 2001. Energetics of overall metabolic reactions of thermophilic and hyperthermophilic Archaea and Bacteria. FEMS Microbiol. Rev. 25:175-243.
2. Antoine, M., S. Boschi-Muller, and G. Branlant. 2003. Kinetic characterization of the chemical steps involved in the catalytic mechanism of methionine sulfoxide reductase A from Neisseria meningitidis. J. Biol. Chem. 278:45352-45357.
3. Atomi, H., T. Fukui, T. Kanai, M. Morikawa, and T. Imanaka. 2004. Description of Thermococcus kodakaraensis sp. nov., a well studied hyperthermophilic archaeon previously reported as Pyrococcus sp. KOD1. Archaea 1:263-267.
4. Boschi-Muller, S., S. Azza, S. Sanglier-Cianferani, F. Talfournier, A. Van Dorsselear, and G. Branlant. 2000. A sulfenic acid enzyme intermediate is involved in the catalytic mechanism of peptide methionine sulfoxide reductase from Escherichia coli. J. Biol. Chem. 275:35908-35913.
5. Boschi-Muller, S., A. Olry, M. Antoine, and G. Branlant. 2005. The enzymology and biochemistry of methionine sulfoxide reductases. Biochim. Biophys. Acta 1703:231-238.
6. Brot, N., L. Weissbach, J. Werth, and H. Weissbach. 1981. Enzymatic reduction of protein-bound methionine sulfoxide. Proc. Natl. Acad. Sci. USA 78:2155-2158.
7. Cohen, G. N., V. Barbe, D. Flament, M. Galperin, R. Heilig, O. Lecompte, O. Poch, D. Prieur, J. Quérellou, R. Ripp, J. C. Thièrry, J. Van der Oost, J. Weissenbach, Y. Zivanovic, and P. Forterre. 2003. An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi. Mol. Microbiol. 47:1495-1512.
8. Erauso, G., A.-L. Reysenbach, A. Godfrey, J.-R. Meunier, B. Crump, F. Pafrtensky, J. A. Baross, V. Marteinsson, G. Barbier, N. R. Pace, and D. Prieur. 1993. Pyrococcus abyssi sp. nov., a new hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent. Arch. Microbiol. 160:338-349.
9. Ezraty, B., L. Aussel, and F. Barras. 2005. Methionine sulfoxide reductases in prokaryotes. Biochim. Biophys. Acta 1703:221-229.
10. Fiala, G., and K. O. Stetter. 1986. Pyrococcus furiosus sp. nov. represents a novel genus of marine heterotrophic archaebacteria growing optimally at 100°C. Arch. Microbiol. 145:56-61.
11. Fukui, T., H. Atomi, T. Kanai, R. Matsumi, S. Fujiwara, and T. Imanaka. 2005. Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes. Genome Res. 15:352-363.
12. González, J. M., Y. Masuchi, F. T. Robb, J. W. Ammerman, D. L. Maeder, M. Yanagibayashi, J. Tamaoka, and C. Kato. 1998. Pyrococcus horikoshii sp. nov., a hyperthermophilic archaeon isolated from a hydrothermal vent at the Okinawa Trough. Extremophiles 2:123-130.
13. González, J. M., D. Sheckells, M. Viebahn, D. Krupatkina, K. M. Borges, and F. T. Robb. 1999. Thermococcus waiotapuensis sp. nov., an extremely thermophilic archaeon isolated from a freshwater hot spring. Arch. Microbiol. 172:95-101.
14. Grogan, D. W. 1989. Phenotypic characterization of the archaebacterial genus Sulfolobus: comparison of five wild-type strains. J. Bacteriol. 171:6710-6719.
15. Gruber, C., A. Legat, M. Pfaffenhuemer, C. Radax, G. Weidler, H. J. Busse, and H. Stan-Lotter. 2004. Halobacterium noricense sp. nov., an archaeal isolate from a bore core of an alpine Permian salt deposit, classification of Halobacterium sp. NRC-1 as a strain of H. salinarum and emended description of H. salinarum. Extremophiles 8:431-439.
16. Holden, J. F., K. Takai, M. Summit, S. Bolton, J. Zyskowski, and J. A. Baross. 2001. Diversity among three novel groups of hyperthermophilic deep-sea Thermococcus species from three sites in the northeastern Pacific Ocean. FEMS Microbiol. Ecol. 36:51-60.
17. Huber, H., M. J. Hohn, R. Rachel, T. Fuchs, V. C. Wimmer, and K. O. Stetter. 2002. A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont. Nature 417:63-67.
18. Itoh, T. 2003. Taxonomy of nonmethanogenic hyperthermophilic and related thermophilic archaea. J. Biosci. Bioeng. 96:203-212.
19. Jones, W. J., J. A. Leigh, F. Mayer, C. R. Woese, and R. S. Wolfe. 1983. Methanococcus jannaschii sp. nov., an extremely thermophilic methanogen from a submarine hydrothermal vent. Arch. Microbiol. 136:254-261.
20. Kauffmann, B., A. Aubry, and F. Favier. 2005. The three-dimensional structures of peptide methionine sulfoxide reductases: current knowledge and open questions. Biochim. Biophys. Acta 1703:249-260.
21. Kawarabayasi, Y., Y. Hino, H. Horikawa, S. Yamazaki, Y. Haikawa, K. Jin-no, M. Takahashi, M. Sekine, S. Baba, A. Ankai, H. Kosugi, A. Hosoyama, S. Fukui, Y. Nagai, K. Nishijima, H. Nakazawa, M. Takamiya, S. Masuda, T. Funahashi, T. Tanaka, Y. Kudoh, J. Yamazaki, N. Kushida, A. Oguchi, K. Aoki, K. Kubota, Y. Nakamura, N. Nomura, Y. Sako, and H. Kikuchi. 1999. Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pemix K1. DNA Res. 6:83-101.
22. Kawarabayasi, Y., M. Sawada, H. Horikawa, Y. Haikawa, Y. Hino, S. Yamamoto, M. Sekine, S. Baba, H. Kosugi, A. Hosoyama, Y. Nagai, M. Sakai, K. Ogura, R. Otsuka, H. Nakazawa, M. Takamiya, Y. Ohfuku, T. Funahashi, T. Tanaka, Y. Kudoh, J. Yamazaki, N. Kushida, A. Oguchi, K. Aoki, and H. Kikuchi. 1998. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3. DNA Res. 5:55-76.
23. Keller, M., F.-J. Braun, R. Dirmeier, D. Hafenbradl, S. Burggraf, R. Rachel, and K. O. Stetter. 1995. Thermococcus alcaliphilus sp. nov., a new hyperthermophilic archaeum growing on polysulfide at alkalir e pH. Arch. Microbiol. 164:390-395.
24. Klenk, H.-P., R. A. Clayton, J.-F. Tomb, O. White, K. E. Nelson, K. A. Ketchum, R. J. Dodson, M. Gwinn, E. K. Hickey, J. D. Peterson, D. L. Richardson, A. R. Kerlavage, D. E. Graham, N. C. Kyrpides, R. D. Fleischmann, J. Quackenbush, N. H. Lee, G. G. Sutton, S. Gill, E. F. Kirkness, B. A. Dougherty, K. McKenney, M. D. Adams, B. Loftus, S. Peterson, C. I. Reich, L. K. McNeil, J. H. Badger, A. Glodek, L. Zhou, R. Overbeek, J. D. Gocayne, J. F. Weidman, L. McDonald, T. Utterback, M. D. Cotton, T. Spriggs, P. Artiach, B. P. Kaine, S. M. Sykes, P. W. Sadow, K. P. D'Andrea, C. Bowman, C. Fujii, S. A. Garland, T. M. Mason, G. J. Olsen, C. M. Fraser, H. O. Smith, C. R. Woese, and J. C. Venter. 1997. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus. Nature 390:364-370.
25. Koc, A., A. P. Gasch, J. C. Rutherford, H.-Y. Kim, and V. N. Gladyshev. 2004. Methionine sulfoxide reductase regulation of yeast lifespan reveals reactive oxygen species-dependent and -independent components of aging. Proc. Natl. Acad. Sci. USA 101:7999-8004.
26. Kumar, R. A., A. Koc, R. L. Cerny, and V. N. Gladyshev. 2002. Reaction mechanism, evolutionary analysis, and role of zinc in Drosophila methionine-R-sulfoxide reductase. J. Biol. Chem. 277:37527-37535.
27. Kurr, M., R. Huber, H. König, H. W. Jannasch, H. Fricke, A. Trincone, J. K. Kristjansson, and K. O. Stetter. 1991. Methanopyrus kandleri gen. and sp. nov. represents a novel group of hyperthermophilic meth inogens, growing at 110°C. Arch. Microbiol. 156:239-247.
28. Minetti, G., C. Balduini, and A. Brovelli. 1994. Reduction of DABS-L-methionine-dl-sulfoxide by protein methionine sulfoxide reductase from polymorphonuclear leukocytes: stereospecificity towards the l-sulfoxide. Ital. J. Biochem. 43:273-283.
29. Miroshnichenko, M. L., H. Hippe, E. Stackebrandt, N. A. Kostrikina, N. A. Chernyh, C. Jeanthon, T. N. Nazina, S. S. Belyaev, and E. A. Bonch-Osmolovskaya. 2001. Isolation and characterization of Thermococcus sibiricus sp. nov. from a Western Siberia high-temperature oil reservoir. Extremophiles 5:85-91.
30. Moskovitz, J. 2005. Methionine sulfoxide reductases: ubiquitous enzymes involved in antioxidant defense, protein regulation, and prevention of aging-associated diseases. Biochim. Biophys. Acta 1703:213-219.
31. Moskovitz, J., S. Bar-Noy, W. M. Williams, J. Requena, B. S. Berlett, and E. R. Stadtman. 2001. Methionine sulfoxide reductase (MsrA) is a regulator of antioxidant defense and lifespan in mammals. Proc. Natl. Acad. Sci. USA 98:12920-12925.
32. Moskovitz, J., J. M. Posten, B. S. Berlett, N. J. Nosworthy, R. Szczepanowski, and E. R. Stadtman. 2000. Identification and characterization of a putative active site for peptide methionine sulfoxide reductase (MsrA) and its substrate stereospecificity. J. Biol. Chem. 275:14167-14172.
33. Olry, A., S. Boschi-Muller, and G. Branlant. 2004. Kinetic characterization of the catalytic mechanism of methionine sulfoxide reductase B from Neisseria meningitidis. Biochemistry 43:11616-11622.
34. Oren, A., M. Ginzburg, B. Z. Ginzburg, L. I. Hochstein, and B. E. Volcani. 1990. Haloarcula marismortui (Volcani) sp. nov., nom. rev., an extremely halophilic bacterium from the Dead Sea. Int. J. Syst. Bacteriol. 40:209-210.
35. Orphan, V. J., L. T. Taylor, D. Hafenbradl, and E. F. Delong. 2000. Culture-dependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs. Appl. Environ. Microbiol. 66:700-711.
36. Peterson, M. E., R. Eisenthal, M. J. Danson, A. Spence, and R. M. Daniel. 2004. A new intrinsic thermal parameter for enzymes reveals true temperature optima. J. Biol. Chem. 279:20717-20722.
37. Robb, F. T., D. L. Maeder, J. R. Brown, J. DiRuggiero, M. D. Stump, R. K. Yeh, R. B. Weiss, and D. M. Dunn. 2001. Genomic sequence of hyperthermophile Pyrococcus furiosus: implications for physiology and enzymology. Methods Enzymol. 330:134-157.
38. Robinson, J. L., B. Pyzyna, R. G. Atrasz, C. A. Henderson, K. L. Morrill, A. M. Burd, E. Desoucy, R. E. Fogleman III, J. B. Naylor, S. M. Steele, D. R. Elliott, K. J. Leyva, and R. F. Shand. 2005. Growth kinetics of extremely halophilic Archaea (family Halobacteriaceae) as revealed by Arrhenius plots. J. Bacteriol. 187:923-929.
39. Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
40. Sato, T., T. Fukui, H. Atomi, and T. Imanaka. 2003. Targeted gene disruption by homologous recombination in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1. J. Bacteriol. 185:210-220.
41. Schleper, C., G. Puehler, I. Holz, A. Gambacorta, D. Janekovic, U. Santarius, H.-P. Klenk, and W. Zillig. 1995. Picrophilus gen. nov., fam. nov.: a novel aerobic, heterotrophic, thermoacidophilic genus and family comprising archaea capable of growth around pH 0. J. Bacteriol. 177:7050-7059.
42. Segerer, A., T. A. Langworthy, and K. O. Stetter. 1988. Thermoplasma acidophilum and Thermplasma volcanium sp. nov. from solfatara fields. Syst. Appl. Microbiol. 10:161-171.
43. She, Q., R. K. Singh, F. Confalonieri, Y. Zivanovic, G. Allard, M. J. Awayez, C. C.-Y. Chan-Weiher, I. G. Clausen, B. A. Curtis, A. De Moors, G. Erauso, C. Fletcher, P. M. K. Gordon, I. Heikamp-de Jong, A. C. Jeffries, C. J. Kozera, N. Medina, X. Peng, H. P. Thi-Ngoc, P. Redder, M. E. Schenk, C. Theriault, N. Tolstrup, R. L. Charlebois, W. F. Doolittle, M. Duguet, T. Gaasterland, R. A. Garrett, M. A. Ragan, C. W. Sensen, and J. Van der Oost. 2001. The complete genome of the crenarchaeon Sulfolobus solfataricus P2. Proc. Natl. Acad. Sci. USA 98:7835-7840.
44. Smith, D. R., L. A. Doucette-Stamm, C. Deloughery, H. Lee, J. Dubois, T. Aldredge, R. Bashirzadeh, D. Blakely, R. Cook, K. Gilbert, D. Harrison, L. Hoang, P. Keagle, W. Lumm, B. Pothier, D. Qiu, R. Spadafora, R. Vicaire, Y. Wang, J. Wierzbowski, R. Gibson, N. Jiwani, A. Caruso, D. Bush, H. Safer, D. Patwell, S. Prabhakar, S. McDougall, G. Shimer, A. Goyal, S. Pietrokovski, G. M. Church, C. J. Daniels, J. Mao, P. Rice, J. Nölling, and J. N. Reeve. 1997. Complete genome sequence of Methanobacterium thermoautotrophicum ΔH: functional analysis and comparative genomics. J. Bacteriol. 179:7135-7155.
45. Suzuki, T., T. Iwasaki, T. Uzawa, K. Hara, N. Nemoto, T. Kon, T. Ueki, A. Yamagishi, and T. Oshima. 2002. Sulfolobus tokodaii sp. nov. (f. Sulfolobus sp. strain 7), a new member of the genus Sulfolobus isolated from Beppu Hot Springs, Japan. Extremophiles 6:39-44.
46. Thomas, T., N. Kumar, and R. Cavicchioli. 2001. Effects of ribosomes and intracellular solutes on activities and stabilities of elongation factor 2 proteins from psychrotolerant and thermophilic methanogens. J. Bacteriol. 183:1974-1982.
47. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
48. Verhees, C. H., S. W. M. Kengen, J. E. Tuininga, G. J. Schut, M. W. W. Adams, W. M. De Vos, and J. Van der Oost. 2003. The unique features of glycolytic pathways in Archaea. Biochem. J. 375:231-246.
49. Völkl, P., R. Huber, E. Drobner, R. Rachel, S. Burggraf, A. Trincone, and K. O. Stetter. 1993. Pyrobaculum aerophilum sp. nov., a novel nitrate-reducing hyperthermophilic archaeum. Appl. Environ. Microbiol. 59:2918-2926.