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Identification, expression and characterization of an R-ω-transaminase from Capronia semiimmersa

Abstract

Chiral amines are essential precursors in the production of biologically active compounds, including several important drugs. Among the biocatalytic strategies that have been developed for their synthesis, the use of ω-transaminases (ω-TA) appears as an attractive alternative allowing the stereoselective amination of prochiral ketones. However, the problems associated with narrow substrate specificity, unfavourable reaction equilibrium and expensive amine donors still hamper its industrial application. The search for novel enzymes from nature can contribute to expand the catalytic repertoire of ω-TA and help to circumvent some of these problems. A genome mining approach, based on the work described by Höhne et al., was applied for selection of potential R-ω-TA. Additional criteria were used to select an enzyme that differs from previously described ones. A candidate R-ω-TA from Capronia semiimmersa was selected, cloned and expressed in Escherichia coli. Interestingly, alignment of this enzyme with previously reported TA sequences revealed the presence of two additional amino acid residues in a loop close to the active site. The impact of this change was analysed with a structural model based on crystallized R-ω-TAs. Analysis of the substrate specificity of R-ω-TA from C. semiimmersa indicates that it accepts a diversity of ketones as substrates yielding the corresponding amine with good yields and excellent enantioselectivity. The expressed enzyme accepts isopropylamine as amine donor what makes it suitable for industrial processes.

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References

  • Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • Angajala G, Pavan P, Subashini R (2016) Lipases: an overview of its current challenges and prospectives in the revolution of biocatalysis. Biocatal Agric Biotechnol 7:257–270

    Google Scholar 

  • Cassiano NM (2010) Alkaloids: properties, applications and pharmacological effect. Nova Science Pub. Inc., New York

    Google Scholar 

  • Cerioli L, Planchestainer M, Cassidy J, Tessaro D, Paradisi F (2015) Characterization of a novel amine transaminase from Halomonas elongate. J Mol Catal B Enzym 120:141–150

    CAS  Article  Google Scholar 

  • Clay D, Koszelewski D, Grischek B, Gross J, Lavandera I, Kroutil W (2010) Testing of microorganisms for ω-transaminase activity. Tetrahedron Asymmetry 21(16):2005–2009

    CAS  Article  Google Scholar 

  • Cornish-Bowden AT (1995) Fundamentals of enzyme kinetics. Portland Press, London

    Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  PubMed  Google Scholar 

  • Goto M, Miyahara I, Hayashi H, Kagamiyama H, Hirotsu K (2003) Crystal structures of branched-chain amino acid aminotransferase complexed with glutamate and glutarate: true reaction intermediate and double substrate recognition of the enzyme. Biochemistry 42:3725–3733

    CAS  Article  PubMed  Google Scholar 

  • Guan LJ, Ohtsuka J, Okai M, Miyakawa T, Mase T, Zhi Y, Hou F, Ito N, Iwasaki A, Yasohara Y, Tanokura M (2015) A new target region for changing the substrate specificity of amine transaminases. Sci Rep 5:10753. doi:10.1038/srep10753

  • Höhne M, Schätzle S, Jochens H, Robins K, Bornscheuer UT (2010) Rational assignment of key motifs for function guides in silico enzyme identification. Nat Chem Biol 6:807–813

    Article  PubMed  Google Scholar 

  • Iwasaki A, Yamada Y, Kizaki N, Ikenaka Y, Hasegawa J (2006) Microbial synthesis of chiral amines by (R)-specific transamination with Arthrobacter sp. KNK168. Appl Microbiol Biotechnol 69(5):499–505

    CAS  Article  PubMed  Google Scholar 

  • Iwasaki A, Matsumoto K, Hasegawa J, Yasohara Y (2011) A novel transaminase, (R)-amine:pyruvate aminotransferase, from Arthrobacter sp. KNK168 (FERM BP-5228): purification, characterization, and gene cloning. Appl Microbiol Biotechnol 93(4):1563–1573

    Article  PubMed  Google Scholar 

  • Jiang J, Chen X, Zhang D, Wu Q, Zhu D (2015) Characterization of (R)-selective amine transaminases identified by in silico motif sequence blast. Appl Microbiol Biotechnol 99(6):2613–2621

    CAS  Article  PubMed  Google Scholar 

  • Jones DT (1999) Protein secondary structure prediction based on position-specific scoring matrices. J Mol Biol 292(2):195–202

    CAS  Article  PubMed  Google Scholar 

  • Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8:275–282

    CAS  PubMed  Google Scholar 

  • Kohls H, Steffen-Munsberg F, Höhne M (2014) Recent achievements in developing the biocatalytic toolbox for chiral amine synthesis. Curr Op Chem Biol 19(1):180–192

    CAS  Article  Google Scholar 

  • Koszelewski D, Goritzer M, Clay D, Seisser B, Kroutil W (2010a) Synthesis of optically active amines employing recombinant ω-transaminases in E. coli cells. ChemCatChem 2(1):73–77

    CAS  Article  Google Scholar 

  • Koszelewski D, Tauber K, Faber K, Kroutil W (2010b) ω-Transaminases for the synthesis of non-racemic α-chiral primary amines. Trends Biotechnol 28(6):324–332

    CAS  Article  PubMed  Google Scholar 

  • Krieger E, Vriend G (2014) YASARA view—molecular graphics for all devices—from smartphones to workstations. Bioinformatics 30(20):2981–2982

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • Kroutil W, Fischereder EM, Fuchs CS, Lechner H, Mutti FG, Pressnitz D, Rajagopalan A, Sattler JH, Simon RC, Siirola E (2013) Asymmetric preparation of prim -, sec -, and tert-amines employing selected biocatalysts. Org Process Res Dev 17(5):751–759

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874

    CAS  Article  PubMed  Google Scholar 

  • 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(21):2947–2948

    CAS  Article  PubMed  Google Scholar 

  • Lyskowski A, Gruber C, Steinkellner G, Schürmann M, Schwab H, Gruber K, Steiner K (2014) Crystal structure of an (R)-selective ω-transaminase from Aspergillus terreus. PLoS ONE 9(1):e87350. doi:10.1371/journal.pone.0087350

  • Martinez-Montero L, Gotor V, Gotor-Fernandez V, Lavanderaa I (2016) But-2-ene-1,4-diamine and But-2-ene-1,4-diol as donors for thermodynamically favored transaminase- and alcohol dehydrogenase-catalyzed processes. Adv Synth Catal 358:1618–1624

    CAS  Article  Google Scholar 

  • Mutti FG, Fuchs CS, Pressnitz D, Sattler JH, Kroutil W (2011) Stereoselectivity of four (R)-selective transaminases for the asymmetric amination of ketones. Adv Synth Catal 353(17):3227–3233

    CAS  Article  Google Scholar 

  • Newman DJ, Cragg GM (2012) Natural products as sources of new drugs over the 30 years from 1981 to 2010. J Nat Prod 75:311–335

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • O’Reilly E, Iglesias C, Ghislieri D, Hopwood J, Galman JL, Lloyd RC, Turner NJ (2014) A regio- and stereoselective ω- transaminase/monoamine oxidase cascade for the synthesis of chiral 2,5-disubstituted pyrrolidines. Angew Chem 53:2447–2450

    Article  Google Scholar 

  • Paul CE, Rodríguez-Mata M, Busto E, Lavandera I, Gotor-Fernández V, Gotor V, García-Cerrada S, Mendiola J, De Frutos O, Collado I (2014) Transaminases applied to the synthesis of high added-value enantiopure amines. Org Process Res Dev 18(6):788–792

    CAS  Article  Google Scholar 

  • Sambrook J, Russell DW (2001) Molecular cloning. A laboratory manual. 3rd ed, Cold Spring Harbor Laboratory Press, New York.

  • Savile CK, Janey JM, Mundorff EC, Moore JC, Tam S, Jarvis WR, Colbeck JC, Krebber A, Fleitz FJ, Brands J, Devine PN, Huisman GW, Hughes GJ (2010) Biocatalytic asymmetric synthesis of chiral amines from ketones applied to sitagliptin manufacture. Science 329(5989):305–309

    CAS  Article  PubMed  Google Scholar 

  • Sayer C, Martinez-Torres RJ, Richter N, Isupov MN, Hailes HC, Littlechild JA, Ward JM (2014) The substrate specificity, enantioselectivity and structure of the (R)-selective amine: pyruvate transaminase from Nectria haematococca. FEBS J 281(9):2240–2253

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • Schätzle S, Höhne M, Redestad E, Robins K, Bornscheuer UT (2009) Rapid and sensitive kinetic assay for characterization of ω-transaminases. Anal Chem 81(19):8244–8248

    Article  PubMed  Google Scholar 

  • Schätzle S, Steffen-Munsberg F, Thontowi A, Höhne M, Robins K, Bornscheuer UT (2011) Enzymatic asymmetric synthesis of enantiomerically pure aliphatic, aromatic and arylaliphatic amines with (R)-selective amine transaminases. Adv Synth Catal 353(13):2439–2445

    Article  Google Scholar 

  • Schrittwieser JH, Velikogne S, Kroutil W (2015) Biocatalytic imine reduction and reductive amination of ketones. Adv Synth Catal 357(8):1655–1685

    CAS  Article  Google Scholar 

  • Shin JS, Kim BG (1999) Asymmetric synthesis of chiral amines with ω-transaminase. Biotechnol Bioeng 65(2):206–211

    CAS  Article  PubMed  Google Scholar 

  • Slabu I, Galman JL, Weise NJ, Lloyd RC, Turner NJ (2016) Putrescine transaminases for the synthesis of saturated nitrogen heterocycles from polyamines. ChemCatChem 8(6):1038–1042

    CAS  Article  Google Scholar 

  • Sugio S, Petsko GA, Manning JM, Soda K, Ringe D (1995) Crystal structure of a d-amino acid aminotransferase: how the protein controls stereoselectivity. Biochemistry 34:9661–9669

    CAS  Article  PubMed  Google Scholar 

  • Thompson JD, Higgins DG, Gibson TJ (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(22):4673–4680

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  • Thomsen M, Skalden L, Palm GJ, Höhne M, Bornscheuer UT, Hinrichs W (2014) Crystallographic characterization of the (R)-selective amine transaminase from Aspergillus fumigatus. Acta Crystallogr D Biol Crystallogr 70:1086–1093

    CAS  Article  PubMed  Google Scholar 

  • Turner NJ (2011) Deracemisation methods. Curr Op Chem Biol 14(2):115–121

    Article  Google Scholar 

  • Welsch ME, Snyder SA, Stockwell BR (2010) Privileged scaffolds for library design and drug discovery. Curr Op Chem Biol 14(3):347–361

    CAS  Article  Google Scholar 

Download references

Acknowledgments

The authors would like to acknowledge de Organization for the Prohibition of Chemical Weapons (L/ICA/ICB/187531/13); PEDECIBA Química; CSIC I+D 611; UdelaR; Agencia Nacional de Investigación e Innovación (FMV-3-2013-1-100776). César Iglesias acknowledges CAP UdelaR Graduate Scholarship.

The authors would like to acknowledge Dr. Nicholas Turner and his lab for academic support, and MSc Valentina Croce for help with phylogenetic tree construction.

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Correspondence to Sonia Rodriguez Giordano.

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Iglesias, C., Panizza, P. & Rodriguez Giordano, S. Identification, expression and characterization of an R-ω-transaminase from Capronia semiimmersa . Appl Microbiol Biotechnol 101, 5677–5687 (2017). https://doi.org/10.1007/s00253-017-8309-2

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  • DOI: https://doi.org/10.1007/s00253-017-8309-2

Keywords

  • R-ω-transaminase
  • Chiral amines
  • Biocatalysis
  • Capronia semiimmersa