251
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Rinkel J, Rabe P, Garbeva P, Dickschat JS. Lessons from 1,3-Hydride Shifts in Sesquiterpene Cyclizations. Angew Chem Int Ed Engl 2016; 55:13593-13596. [PMID: 27666571 DOI: 10.1002/anie.201608042] [Citation(s) in RCA: 50] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2016] [Indexed: 11/09/2022]
Abstract
Stereospecifically labelled precursors were subjected to conversion by seven bacterial sesquiterpene cyclases to investigate the stereochemistry of their initial 1,10-cyclisation-1,3-hydride shift cascades. Enzymes with products of known absolute configuration showed a coherent stereochemical course, except for (-)-α-amorphene synthase, for which the obtained results are better explained by an initial 1,6-cyclisation. The link between the absolute configuration of the product and the stereochemical course of the 1,3-hydride shifts enabled assignment of the absolute configurations of three enzyme products, which were confirmed independently through the absolute configuration of the common byproduct germacrene D-4-ol.
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Affiliation(s)
- Jan Rinkel
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany
| | - Patrick Rabe
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany
| | - Paolina Garbeva
- Nederlands Instituut voor Ecologie, Koninklijke Nederlandse Akademie van Wetenschappen, Droevendaalsesteeg 10, 6708 PB, Wageningen, The Netherlands
| | - Jeroen S Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany. .,Nederlands Instituut voor Ecologie, Koninklijke Nederlandse Akademie van Wetenschappen, Droevendaalsesteeg 10, 6708 PB, Wageningen, The Netherlands.
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252
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Rabe P, Schmitz T, Dickschat JS. Mechanistic investigations on six bacterial terpene cyclases. Beilstein J Org Chem 2016; 12:1839-1850. [PMID: 27829890 PMCID: PMC5082573 DOI: 10.3762/bjoc.12.173] [Citation(s) in RCA: 52] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2016] [Accepted: 08/01/2016] [Indexed: 11/26/2022] Open
Abstract
The products obtained by incubation of farnesyl diphosphate (FPP) with six purified bacterial terpene cyclases were characterised by one- and two-dimensional NMR spectroscopic methods, allowing for a full structure elucidation. The absolute configurations of four terpenes were determined based on their optical rotary powers. Incubation experiments with 13C-labelled isotopomers of FPP in buffers containing water or deuterium oxide allowed for detailed insights into the cyclisation mechanisms of the bacterial terpene cyclases.
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Affiliation(s)
- Patrick Rabe
- Kekulé-Institute of Organic Chemistry and Biochemistry, University of Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany
| | - Thomas Schmitz
- Kekulé-Institute of Organic Chemistry and Biochemistry, University of Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany
| | - Jeroen S Dickschat
- Kekulé-Institute of Organic Chemistry and Biochemistry, University of Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany
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253
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Klapschinski TA, Rabe P, Dickschat JS. Pristinol, a Sesquiterpene Alcohol with an Unusual Skeleton from Streptomyces pristinaespiralis. Angew Chem Int Ed Engl 2016; 55:10141-4. [PMID: 27403888 DOI: 10.1002/anie.201605425] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2016] [Indexed: 11/11/2022]
Abstract
A terpene cyclase from Streptomyces pristinaespiralis was characterized as the synthase for (+)-(2S,3S,9R)-pristinol. The structure of this sesquiterpene alcohol, which has a new carbon skeleton, was established by NMR spectroscopy and single-wavelength anomalous-dispersion X-ray crystallography. Extensive isotopic labelling experiments were performed to distinguish between various possible cyclization mechanisms of the terpene cyclase and to decipher the EI-MS fragmentation mechanism for pristinol.
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Affiliation(s)
- Tim A Klapschinski
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany
| | - Patrick Rabe
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany
| | - Jeroen S Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany.
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254
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Klapschinski TA, Rabe P, Dickschat JS. Pristinol, ein Sesquiterpen-Alkohol mit ungewöhnlichem Gerüst ausStreptomyces pristinaespiralis. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201605425] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Tim A. Klapschinski
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Deutschland
| | - Patrick Rabe
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Deutschland
| | - Jeroen S. Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Deutschland
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255
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Burkhardt I, Siemon T, Henrot M, Studt L, Rösler S, Tudzynski B, Christmann M, Dickschat JS. Mechanistic Characterisation of Two Sesquiterpene Cyclases from the Plant Pathogenic FungusFusarium fujikuroi. Angew Chem Int Ed Engl 2016; 55:8748-51. [DOI: 10.1002/anie.201603782] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2016] [Indexed: 11/05/2022]
Affiliation(s)
- Immo Burkhardt
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Germany
| | - Thomas Siemon
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Germany
| | - Matthias Henrot
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Germany
| | - Lena Studt
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Germany
- Institut für Angewandte Genetik und Zellbiologie; Universität für Bodenkultur Wien; Konrad-Lorenz-Straße 24/I 3430 Tulln an der Donau Austria
| | - Sarah Rösler
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Germany
| | - Bettina Tudzynski
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Germany
| | - Mathias Christmann
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Germany
| | - Jeroen S. Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Germany
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256
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Burkhardt I, Siemon T, Henrot M, Studt L, Rösler S, Tudzynski B, Christmann M, Dickschat JS. Mechanistische Charakterisierung von zwei Sesquiterpen-Cyclasen aus dem phytopathogenen PilzFusarium fujikuroi. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201603782] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Immo Burkhardt
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Deutschland
| | - Thomas Siemon
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Deutschland
| | - Matthias Henrot
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Deutschland
| | - Lena Studt
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Deutschland
- Institut für Angewandte Genetik und Zellbiologie; Universität für Bodenkultur Wien; Konrad-Lorenz-Straße 24/I 3430 Tulln an der Donau Österreich
| | - Sarah Rösler
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Deutschland
| | - Bettina Tudzynski
- Institut für Biologie und Biotechnologie der Pflanzen; Westfälische Wilhelms-Universität Münster; Schlossplatz 8 48143 Münster Deutschland
| | - Mathias Christmann
- Institut für Chemie und Biochemie - Organische Chemie; Freie Universität Berlin; Takustraße 3 14195 Berlin Deutschland
| | - Jeroen S. Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Straße 1 53121 Bonn Deutschland
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257
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Rabe P, Klapschinski TA, Dickschat JS. Position-Specific Mass Shift Analysis: A Systematic Method for Investigating the EI-MS Fragmentation Mechanism of epi-Isozizaene. Chembiochem 2016; 17:1333-7. [PMID: 27123899 DOI: 10.1002/cbic.201600237] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2016] [Indexed: 11/10/2022]
Abstract
The EI-MS fragmentation mechanism of the bacterial sesquiterpene epi-isozizaene was investigated through enzymatic conversion of all 15 synthetic ((13) C1 )FPP isotopomers with the epi-isozizaene synthase from Streptomyces albus and GC-MS and GC-QTOF analysis including MS-MS. A systematic method, which we wish to call position-specific mass shift analysis, for the identification of the full set of fragmentation reactions was developed.
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Affiliation(s)
- Patrick Rabe
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany
| | - Tim A Klapschinski
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany
| | - Jeroen S Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany.
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258
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Domik D, Thürmer A, Weise T, Brandt W, Daniel R, Piechulla B. A Terpene Synthase Is Involved in the Synthesis of the Volatile Organic Compound Sodorifen of Serratia plymuthica 4Rx13. Front Microbiol 2016; 7:737. [PMID: 27242752 PMCID: PMC4872519 DOI: 10.3389/fmicb.2016.00737] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2016] [Accepted: 05/03/2016] [Indexed: 11/29/2022] Open
Abstract
Bacteria release a plethora of volatile organic compounds, including compounds with extraordinary structures. Sodorifen (IUPAC name: 1,2,4,5,6,7,8-heptamethyl-3-methylenebicyclo[3.2.1]oct-6-ene) is a recently identified and unusual volatile hydrocarbon that is emitted by the rhizobacterium Serratia plymuthica 4R×13. Sodorifen comprises a bicyclic ring structure solely consisting of carbon and hydrogen atoms, where every carbon atom of the skeleton is substituted with either a methyl or a methylene group. This unusual feature of sodorifen made a prediction of its biosynthetic origin very difficult and so far its biosynthesis is unknown. To unravel the biosynthetic pathway we performed genome and transcriptome analyses to identify candidate genes. One knockout mutant (SOD_c20750) showed the desired negative sodorifen phenotype. Here it was shown for the first time that this gene is indispensable for the synthesis of sodorifen and strongly supports the hypothesis that sodorifen descends from the terpene metabolism. SOD_c20750 is the first bacterial terpene cyclase isolated from Serratia spp. and Enterobacteriales. Homology modeling revealed a 3D structure, which exhibits a functional role of amino acids for intermediate cation stabilization (W325) and putative proton acception (Y332). Moreover, the size and hydrophobicity of the active site strongly indicates that indeed the enzyme may catalyze the unusual compound sodorifen.
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Affiliation(s)
- Dajana Domik
- Institute for Biological Sciences, University of Rostock Rostock, Germany
| | - Andrea Thürmer
- Institute of Microbiology and Genetics, Applied Microbiology and Göttingen Genomics Laboratory, University of Göttingen Göttingen, Germany
| | | | | | - Rolf Daniel
- Institute of Microbiology and Genetics, Applied Microbiology and Göttingen Genomics Laboratory, University of Göttingen Göttingen, Germany
| | - Birgit Piechulla
- Institute for Biological Sciences, University of Rostock Rostock, Germany
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259
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Schifrin A, Khatri Y, Kirsch P, Thiel V, Schulz S, Bernhardt R. A single terpene synthase is responsible for a wide variety of sesquiterpenes in Sorangium cellulosum Soce56. Org Biomol Chem 2016; 14:3385-93. [DOI: 10.1039/c6ob00130k] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The myxobacterium Sorangium cellulosum So ce56 is a prolific producer of volatile sesquiterpenes.
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Affiliation(s)
- Alexander Schifrin
- Universität des Saarlandes
- Institut für Biochemie
- 66123 Saarbrücken
- Germany
| | - Yogan Khatri
- Universität des Saarlandes
- Institut für Biochemie
- 66123 Saarbrücken
- Germany
| | - Philine Kirsch
- Universität des Saarlandes
- Institut für Biochemie
- 66123 Saarbrücken
- Germany
| | - Verena Thiel
- Technische Universität Braunschweig
- Institut für Organische Chemie
- 38106 Braunschweig
- Germany
| | - Stefan Schulz
- Technische Universität Braunschweig
- Institut für Organische Chemie
- 38106 Braunschweig
- Germany
| | - Rita Bernhardt
- Universität des Saarlandes
- Institut für Biochemie
- 66123 Saarbrücken
- Germany
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260
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Rabe P, Janusko A, Goldfuss B, Dickschat JS. Experimental and Theoretical Studies on Corvol Ether Biosynthesis. Chembiochem 2015; 17:146-9. [DOI: 10.1002/cbic.201500543] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2015] [Indexed: 11/10/2022]
Affiliation(s)
- Patrick Rabe
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Strasse 1 53121 Bonn Germany
| | - Aron Janusko
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Strasse 1 53121 Bonn Germany
| | - Bernd Goldfuss
- Department für Chemie; Universität zu Köln; Greinstrasse 4 50939 Köln Germany
| | - Jeroen S. Dickschat
- Kekulé-Institut für Organische Chemie und Biochemie; Rheinische Friedrich-Wilhelms-Universität Bonn; Gerhard-Domagk-Strasse 1 53121 Bonn Germany
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