Characterization and structural modeling of a novel thermostable glycine oxidase from Geobacillus kaustophilus HTA426

Proteins: Structure, Function and Genetics

Volumn 70, Issue 4, 2008, Pages 1429-1441

  Martínez Martínez, Irene ^a   Navarro Fernández, José ^a   García Carmona, Francisco ^a   Takami, Hideto ^b   Sánchez Ferrer, Álvaro ^a  

^a UNIVERSITY OF MURCIA   (Spain)

^b JAPAN AGENCY FOR MARINE EARTH SCIENCE AND TECHNOLOGY   (Japan)

Author keywords

Cyclic amino acid; Homology modeling; Proline; Thermostability; Topology

Indexed keywords

FLAVOPROTEIN; GLYCINE DERIVATIVE; GLYCINE ETHYL ESTER; GLYCINE OXIDASE; MONOMER; N ETHYL GLYCINE; OXIDOREDUCTASE; PROLINE; SARCOSINE; UNCLASSIFIED DRUG;

ALKALINITY; AMINO ACID SEQUENCE; ARTICLE; BACTERIAL STRAIN; CATALYSIS; ENZYME ACTIVITY; ENZYME INDUCTION; ENZYME SPECIFICITY; ENZYME STABILITY; ENZYME SUBSTRATE COMPLEX; GEOBACILLUS; GEOBACILLUS KAUSTOPHILUS; KINETICS; MOLECULAR WEIGHT; NONHUMAN; OLIGOMERIZATION; PRIORITY JOURNAL; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; STRUCTURE ANALYSIS; THERMOSTABILITY;

GEOBACILLUS KAUSTOPHILUS;

EID: 39749184056     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.21690     Document Type: Article

References (39)

1. 1 Gemeiner P, Stefuca V, Welwardova A, Michalkova E, Welward L, Kurillova L, Danielsson B. Direct determination of the cephalosporin transforming activity of immobilized cells with use of an enzyme thermistor. I. Verification of the mathematical model. Enzyme Microb Technol 1993 ; 15: 50–56.
2. 2 Brodelius P, Nilsson K, Mosbach K. Production of α‐keto acids. I. Immobilized cells of Trigonopsis variabilis containing D ‐amino acid oxidase. Appl Biochem Biotechnol 1981 ; 6: 293–308.
3. 3 Butó S, Pollegioni L, D'Angiuro L, Pilone MS. Evaluation of D ‐amino acid oxidase from Rhodotorula gracilis for the production of α‐keto acids: a reactor system. Biotechnol Bioeng 1994 ; 44: 1288–1294.
4. 4 Trost EM, Fischer L. Minimization of by‐product formation during D ‐amino acid oxidase catalyzed racemate resolution of D / L ‐amino acids. J Mol Catal B 2002 ; 19/20: 189–195.
5. 5 Nakajima N, Conrad D, Sumi H, Suzuki K, Esaki N, Wandrey C, Soda K. Continuous conversion to optically pure L ‐methionine from D‐enantiomer contaminated preparations by an immobilized enzyme membrane reactor. J Ferment Technol 1990 ; 70: 322–325.
6. 6 Szwajcer‐Dey E, Flygare S, Mosbach K. Stabilitation of D ‐amino acid oxidase from yeast Trigonopsis variabilis used for production of glutaryl‐7‐aminocephalosporanic acid from cephalosporanic C. Appl Biochem Biotechnol 1991 ; 27: 239–250.
7. 7 Conlon HD, Baqal J, Baker K, Shen YQ, Wong BL, Nolles R, Rausch CW. Two step immobilized enzyme conversion of cephalosporin C to 7‐aminocephalosporanic acid. Biotechnol Bioeng 1995 ; 46: 510–513.
8. 8 Pilone MS, Buto S, Pollegioni L. A process for bioconversion of cephalosporin C by Rhodotorula gracilis D ‐amino acid oxidase. Biotechnol Lett 1995 ; 17: 199–204.
9. 9 Lin LL, Chien HR, Wang WC, Hwang TS, Fu HM, Hsu WH. Expression of Trigonopsis variabilis D ‐amino acid oxidase gene in Escherichia coli and characterization of its inactive mutants. Enzyme Microb Technol 2000 ; 27: 482–491.
10. 10 Job V, Marcone GL, Pilone MS, Pollegioni L. Glycine oxidase from Bacillus subtilis. J Biol Chem 2002 ; 277: 6987–6993.
11. 11 Nishiya Y, Imanaka T. Purification and characterization of a novel glycine oxidase from Bacillus subtilis. FEBS Lett 1998 ; 438: 263–266.
12. 12 Job V, Molla G, Pilone MS, Pollegioni L. Overexpression of a recombinant wild‐type and His‐tagged Bacillus subtilis glycine oxidase in Escherichia coli. Eur J Biochem 2002 ; 269: 1456–1463.
13. 13 Settembre EC, Dorrestein PC, Park JH, Augustine AM, Begley TP, Ealick SE. Structural and mechanistic studies on ThiO, a glycine oxidase essential for thiamine biosynthesis in Bacillus subtilis. Biochemistry 2003 ; 42: 2971–2981.
14. 14 Mörtl M, Diederichs K, Welte W, Molla G, Motteran L, Andriolo G, Pilon MS, Pollegioni L. Structure‐function correlation in glycine oxidase from Bacillus subtilis. J Biol Chem 2004 ; 279: 29718–29727.
15. 15 Martínez‐Martínez I, Navarro‐Fernández J, Lozada‐Ramírez JD, García‐Carmona F, Sánchez‐Ferrer A. Maximization of the production of His‐tagged glycine oxidase and its M261 mutant proteins. Biotechnol Prog 2006 ; 22: 647–652.
16. 16 Martínez‐Martínez I, Kaiser C, Rohde A, Ellert A, García‐Carmona F, Sánchez‐Ferrer A, Luttmann R. High‐level production of Bacillus subtilis glycine oxidase by Fed‐batch cultivation of recombinant Escherichia coli Rosetta. Biotechnol Prog 2007 ; 23: 645–651.
17. 17 Maison W, Lützen A, Kosten M, Schlemminger I, Westerhoff O, Saak W, Martens J. Multicomponent synthesis of tripeptides containing pipecolic acid derivatives: selective induction of cis‐ and trans‐ imide bonds into peptide backbones. J Chem Soc 2000 ; 1867–1871.
18. 18 Keller M, Wohr T, Dumy P, Patiny L, Mutter M. Pseudoprolines (psiPro) in drug design: direct insertion of psiPro system into cyclosporin C. Chemistry 2000 ; 6: 4358–4363.
19. 19 Huh JW, Yokoigawa K, Esaki N, Soda K. Synthesis of L ‐Proline from the racemate by coupling of enzymatic enetiospecific oxidation ad chemical non‐enantiospecific reduction. J Ferment Bioeng 1992 ; 74: 189–190.
20. 20 Takami H, Inoue A, Fuji F, Horikoshi K. Microflora in the deepest sea mud of the Mariana Trench. FEMS Microbiol Lett 1997 ; 152: 279–285.
21. 21 Takami H, Nishi S, Lu J, Shimamura S, Takaki Y Genomic characterization of thermophilic Geobacillus species isolated from the deepest sea mud of the Mariana Trench. Extremophiles 2004 ; 8: 351–356.
22. 22 Takami H, Takaki Y, Chee GJ, Nishi S, Shimamura S, Suzuki H, Matsui S, Uchiyama I Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus. Nucleic Acids Res 2004 ; 32: 6292–6303.
23. 23 Takami H, Kobayashi T, Aono R, Horikoshi K. Molecular cloning, nucleotide sequence and expression of the structural gene for a thermostable alkaline protease from Bacillus sp.. no AH‐101. Appl Microbiol Biotechnol 1992 ; 38: 101–108.
24. 24 Sambrook J, Fritsch EP, Maniatis T. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press ; 1989.
25. 25 Nagata Y, Shimojo T, Akino T. Two spectrophotometric assays for D ‐amino acid oxidase: for the study of distributtion patterns. Int J Biochem 1988 ; 20: 1235–1238.
26. 26 Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res 1994 ; 22: 4673–4680.
27. 27 Altschul SF, Madden TL, Schaffer AA, Zhan J, Zhan Z, Miller W, Lipman DJ. Gapped BLAST and PSI‐BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997 ; 25: 3389–3402.
28. 28 Guex N, Peitsch MC. SWISS‐MODEL and the Swiss‐PdbViewer: an environment for comparative protein modelling. Electrophoresis 1997 ; 18: 2714–2723.
29. 29 Maiti R, Domselaar‐Van GH, Zhang H, Wishart DS. SuperPose: a simple server for sophisticated structural superposition. Nucleic Acids Res 2004 ; 32: 590–594.
30. 30 Gouet P, Courcelle E, Stuart DI, Metoz F. ESPript: multiple sequence alignments in PostScript. Bioinformatics 1999 ; 15: 305–308.
31. 31 Michalopoulos I, Torrance GM, Gilbert DR, Westhead DR. TOPS: an enhanced database of protein structural topology. Nucleic Acid Res 2004 ; 1: 251–254.
32. 32 Pollegioni L, Diederichs K, Molla G, Umhau S, Welte W, Ghisla S, Pilone M. Yeast D ‐amino acid oxidase: structural basis of its catalytic properties. J Mol Biol 2002 ; 324: 535–546.
33. 33 Setoyama C, Miura R. Structural and functional characterization of the human brain D ‐aspartate oxidase. J Biochem 1997 ; 121: 798–803.
34. 34 Costantino HR, Brown SH, Nelly RM. Purification and characterization of an α‐glucosidase from a hyperthermophilic archaebacterium. Pyrococcus furiosus, exhibiting a temperature optimum of 105 to 115°C. J Bacteriol 1990 ; 172: 3654–3660.
35. 35 Ronchi S, Minchiotti L, Galliano M, Curti B, Swenson RP, Williams CH, Massey V. The primary structure of D ‐amino acid oxidase from pig kidney. J Biol Chem 1982 ; 257: 8824–8834.
36. 36 Sacchi S, Lorenzi S, Molla G, Pilone MS, Rossetti C, Pollegioni L. Engineering the substrate specificity of D ‐amino acid oxidase. J Biol Chem 2002 ; 277: 27510–27516.
37. 37 Li WF, Zhou XX, Lu P. Structural features of thermozymes. Biotechnol Adv 2005 ; 23: 271–281.
38. 38 Karshikoff A, Ladenstein R. Ion pair and the thermotolerance of proteins from hyperthermophiles: a “traffic rule” for hot roads. Trends Biochem Sci 2003 ; 26: 550–556.
39. 39 Kyte J, Doolittle RF. A simple method for displaying the hydropathic character of a protein. J Mol Biol 1982 ; 157: 105–132.