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A robust and extracellular heme-containing peroxidase from Thermobifida fusca as prototype of a bacterial peroxidase superfamily
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Although their action mechanism resembles that of other peroxidases, anthraquinone dye degradation by DyPs is not yet fully mapped.
“Although their action mechanism resembles that of other peroxidases, anthraquinone dye degradation is not yet fully mapped 129-134 .”
From Degradation of anthraquinone dyes from effluents: A review focusing on enzymatic dye degradation with industrial potential (2020) · cites this paper as [129]
The Introduction describes peroxide-driven oxidation as a general peroxidase reaction, and the Discussion says understanding of DyP enzymes is limited. But the paper does not specifically say that the mechanism of anthraquinone dye degradation remains unmapped; it also emphasizes that DyPs have distinct reaction characteristics from other peroxidase superfamilies. The indexed passages provide section labels but no page numbers. (LLM, conf=0.83)
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- Antoine E, Rolland JL, Raffin JP, Dietrich J (1999) Cloning and over-expression in Escherichia coli of the gene encoding NADPH group III alcohol dehydrogenase from Thermococcus hydrothermalis. Characterization and comparison of the native and the recombinant enzymes. Eur J Biochem 264:880–889 · DOI
- Banci L (1997) Structural properties of peroxidases. J Biotechnol 53:253–263 · DOI
- Bendtsen JD, Nielsen H, Widdick D, Palmer T, Brunak S (2005) Prediction of twin-arginine signal peptides. BMC Bioinformatics 6:167 · DOI
- Berry EA, Trumpower BL (1987) Simultaneous determination of hemes a, b, and c from pyridine hemochrome spectra. Anal Biochem 161:1–15 · DOI
- Bogsch EG, Sargent F, Stanley NR, Berks BC, Robinson C, Palmer T (1998) An essential component of a novel bacterial protein export system with homologues in plastids and mitochondria. J Biol Chem 273:18003–18006 · DOI
- Burner U, Krapfenbauer G, Furtmuller PG, Regelsberger G, Obinger C (2000) Oxidation of hydroquinone, 2,3-dimethylhydroquinone and 2,3,5-trimethylhydroquinone by human myeloperoxidase. Redox Rep 5:185–190 · DOI
- Casadaban MJ (1976) Transposition and fusion of the lac genes to selected promoters in Escherichia coli using bacteriophage lambda and Mu. J Mol Biol 104:541–555 · DOI
- Casadaban MJ, Cohen SN (1980) Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J Mol Biol 138:179–207 · DOI
- Chen H (2006) Recent advances in azo dye degrading enzyme research. Curr Protein Pept Sci 7:101–111 · DOI
- Chen RR (2007) Permeability issues in whole-cell bioprocesses and cellular membrane engineering. Appl Microbiol Biotechnol 74:730–738 · DOI
- Davies MJ, Hawkins CL, Pattison DI, Rees MD (2008) Mammalian heme peroxidases: from molecular mechanisms to health implications. Antioxid Redox Signal 10:1199–1234 · DOI
- Ebihara A, Okamoto A, Kousumi MR, Ueyama N, Yokoyama S, Kuramitsu S (2005) Structure-based functional identification of a novel heme-binding protein from Thermus thermophilus HB8. J Struct Funct Genomics 6:21–32 · DOI
- Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, Hotz HR, Ceric G, Forslund K, Eddy SR, Sonnhammer EL, Bateman A (2008) The Pfam protein families database. Nucleic Acids Res 36:D281–288 · DOI
- Fraaije MW, Wu J, Heuts DP, van Hellemond EW, Spelberg JH, Janssen DB (2005) Discovery of a thermostable Baeyer–Villiger monooxygenase by genome mining. Appl Microbiol Biotechnol 66:393–400 · DOI
- Huber D, Boyd D, Xia Y, Olma MH, Gerstein M, Beckwith J (2005) Use of thioredoxin as a reporter to identify a subset of Escherichia coli signal sequences that promote signal recognition particle-dependent translocation. J Bacteriol 187:2983–2991 · DOI
- Johjima T, Ohkuma M, Kudo T (2003) Isolation and cDNA cloning of novel hydrogen peroxide-dependent phenol oxidase from the basidiomycete Termitomyces albuminosus. Appl Microbiol Biotechnol 61:220–225 · DOI
- Jongbloed JD, Grieger U, Antelmann H, Hecker M, Nijland R, Bron S, van Dijl JM (2004) Two minimal Tat translocases in Bacillus. Mol Microbiol 54:1319–1325 · DOI
- Kim SJ, Shoda M (1999) Purification and characterization of a novel peroxidase from Geotrichum candidum dec 1 involved in decolorization of dyes. Appl Environ Microbiol 65:1029–1035 · DOI · Paper page
- Kirby R (2006) Actinomycetes and lignin degradation. Adv Appl Microbiol 58:125–168 · DOI
- Klibanov AM (2003) Asymmetric enzymatic oxidoreductions in organic solvents. Curr Opin Biotechnol 14:427–431 · DOI
- Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23:2947–2948 · DOI
- Lee PA, Tullman-Ercek D, Georgiou G (2006) The bacterial twin-arginine translocation pathway. Annu Rev Microbiol 60:373–395 · DOI
- Loughran NB, O’Connor B, O’Fagain C, O’Connell MJ (2008) The phylogeny of the mammalian heme peroxidases and the evolution of their diverse functions. BMC Evol Biol 8:101 · DOI
- Passardi F, Cosio C, Penel C, Dunand C (2005) Peroxidases have more functions than a Swiss army knife. Plant Cell Rep 24:255–265 · DOI
- Passardi F, Theiler G, Zamocky M, Cosio C, Rouhier N, Teixera F, Margis-Pinheiro M, Loannidis V, Penel C, Falquet L, Dunand C (2007) PeroxiBase: the peroxidase database. Phytochemistry 68:1605–1611 · DOI
- Regalado C, García-Almendárez BE, Duarte-Vázquez MA (2004) Biotechnological applications of peroxidases. Phytochem Rev 3:243–256 · DOI · Paper page
- Reszka KJ, McCormick ML, Britigan BE (2001) Peroxidase- and nitrite-dependent metabolism of the anthracycline anticancer agents daunorubicin and doxorubicin. Biochemistry 40:15349–15361 · DOI
- Reszka KJ, Wagner BA, Burns CP, Britigan BE (2005) Effects of peroxidase substrates on the Amplex red/peroxidase assay: antioxidant properties of anthracyclines. Anal Biochem 342:327–337 · DOI
- Stolz A (2001) Basic and applied aspects in the microbial degradation of azo dyes. Appl Microbiol Biotechnol 56:69–80 · DOI · Paper page
- Sturm A, Schierhorn A, Lindenstrauss U, Lilie H, Bruser T (2006) YcdB from Escherichia coli reveals a novel class of Tat-dependently translocated hemoproteins. J Biol Chem 281:13972–13978 · DOI
- Stutzenberger F, Lupo D (1986) Ph-dependent thermal-activation of endo-1, 4-beta-glucanase in Thermomonospora curvata. Enzyme Microb Technol 8:205–208 · DOI
- Sugano Y (2009) DyP-type peroxidases comprise a novel heme peroxidase family. Cell Mol Life Sci 66:1387–1403 · DOI
- Sugano Y, Nakano R, Sasaki K, Shoda M (2000) Efficient heterologous expression in Aspergillus oryzae of a unique dye-decolorizing peroxidase, DyP, of Geotrichum candidum Dec 1. Appl Environ Microbiol 66:1754–1758 · DOI
- Sugano Y, Ishii Y, Shoda M (2004) Role of H164 in a unique dye-decolorizing heme peroxidase DyP. Biochem Biophys Res Commun 322:126–132 · DOI
- Sugano Y, Muramatsu R, Ichiyanagi A, Sato T, Shoda M (2007) DyP, a unique dye-decolorizing peroxidase, represents a novel heme peroxidase family: ASP171 replaces the distal histidine of classical peroxidases. J Biol Chem 282:36652–36658 · DOI
- Thomas JD, Daniel RA, Errington J, Robinson C (2001) Export of active green fluorescent protein to the periplasm by the twin-arginine translocase (Tat) pathway in Escherichia coli. Mol Microbiol 39:47–53 · DOI
- Torres Pazmiño DE, Baas BJ, Janssen DB, Fraaije MW (2008) Kinetic mechanism of phenylacetone monooxygenase from Thermobifida fusca. Biochemistry 47:4082–4093 · DOI
- van Bloois E, Winter RT, Janssen DB, Fraaije MW (2009) Export of functional Streptomyces coelicolor alditol oxidase to the periplasm or cell surface of Escherichia coli and its application in whole-cell biocatalysis. Appl Microbiol Biotechnol 83:679–687 · DOI
- van Hellemond EW, Janssen DB, Fraaije MW (2007) Discovery of a novel styrene monooxygenase originating from the metagenome. Appl Environ Microbiol 73:5832–5839 · DOI
- van Rantwijk F, Sheldon RA (2000) Selective oxygen transfer catalysed by heme peroxidases: synthetic and mechanistic aspects. Curr Opin Biotechnol 11:554–564 · DOI
- Veitch NC (2004) Horseradish peroxidase: a modern view of a classic enzyme. Phytochemistry 65:249–259 · DOI
- Welinder KG, Mauro JM, Norskov-Lauritsen L (1992) Structure of plant and fungal peroxidases. Biochem Soc Trans 20:337–340 · DOI
- Wolf P (1983) A critical reappraisal of Waddell’s technique for ultraviolet spectrophotometric protein estimation. Anal Biochem 129:145–155 · DOI
- Yumoto I, Ichihashi D, Iwata H, Istokovics A, Ichise N, Matsuyama H, Okuyama H, Kawasaki K (2000) Purification and characterization of a catalase from the facultatively psychrophilic bacterium Vibrio rumoiensis S-1(T) exhibiting high catalase activity. J Bacteriol 182:1903–1909 · DOI
- Zubieta C, Joseph R, Krishna SS, McMullan D, Kapoor M, Axelrod HL, Miller MD, Abdubek P, Acosta C, Astakhova T, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, Elias Y, Elsliger MA, Feuerhelm J, Grzechnik SK, Hale J, Han GW, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Kozbial P, Kumar A, Marciano D, Morse AT, Murphy KD, Nigoghossian E, Okach L, Oommachen S, Reyes R, Rife CL, Schimmel P, Trout CV, van den Bedem H, Weekes D, White A, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA (2007a) Identification and structural characterization of heme binding in a novel dye-decolorizing peroxidase, TyrA. Proteins 69:234–243 · DOI
- Zubieta C, Krishna SS, Kapoor M, Kozbial P, McMullan D, Axelrod HL, Miller MD, Abdubek P, Ambing E, Astakhova T, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, Elsliger MA, Feuerhelm J, Grzechnik SK, Hale J, Hampton E, Han GW, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Kumar A, Marciano D, Morse AT, Nigoghossian E, Okach L, Oommachen S, Reyes R, Rife CL, Schimmel P, van den Bedem H, Weekes D, White A, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA (2007b) Crystal structures of two novel dye-decolorizing peroxidases reveal a beta-barrel fold with a conserved heme-binding motif. Proteins 69:223–233 · DOI
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Metadata
- Authors
- van Bloois, E., Torres Pazmiño, D. E., Winter, R. T., & Fraaije, M. W.
- Venue
- Applied Microbiology and Biotechnology
- Published
- 2009-12-05
- Volume
- 86
- Issue
- 5
- Pages
- 1419-1430
- ISSN
- 0175-7598
- 1432-0614
- PMC
- PMC2854361
- Cited by
- 180
- References
- 0
- Language
- en
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