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Lorenzetto T, Bordignon F, Munarin L, Mancin F, Fabris F, Scarso A. Substrate Selectivity Imparted by Self-Assembled Molecular Containers and Catalysts. Chemistry 2024; 30:e202301811. [PMID: 37466005 DOI: 10.1002/chem.202301811] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Revised: 07/14/2023] [Accepted: 07/17/2023] [Indexed: 07/20/2023]
Abstract
Recent trends in catalysis are devoted to mimicking some peculiar features of enzymes like site selectivity, through functional group recognition, and substrate selectivity, through recognition of the entire surface of the substrate. The latter is a specific feature of enzymes that is seldomly present in homogeneous catalysis. Supramolecular catalysis, thanks to the self-assembly of simple subunits, enables the creation of cavities and surfaces whose confinement effects drive the preferential binding of a substrate among others with consequent substrate selectivity. The topic is an emerging field that exploits recognition phenomena to discriminate the reagents based on their size and shape. This review deals this cutting-edge field of research covering examples of supramolecular self-assembled molecular containers and catalysts operating in organic as well as aqueous media, with special emphasis for catalytic systems dealing with direct competitive experiments involving two or more substrates.
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Affiliation(s)
- Tommaso Lorenzetto
- Dipartimento di Scienze Molecolari e Nanosistemi, Università Ca' Foscari di Venezia, Via Torino 155, Venezia Mestre, 30172, Italy
| | - Francesca Bordignon
- Dipartimento di Scienze Molecolari e Nanosistemi, Università Ca' Foscari di Venezia, Via Torino 155, Venezia Mestre, 30172, Italy
- Dipartimento di Scienze Chimiche, Università degli studi di Padova, via Marzolo 1, Padova, 35100, Italy
| | - Luca Munarin
- Dipartimento di Scienze Molecolari e Nanosistemi, Università Ca' Foscari di Venezia, Via Torino 155, Venezia Mestre, 30172, Italy
| | - Fabrizio Mancin
- Dipartimento di Scienze Chimiche, Università degli studi di Padova, via Marzolo 1, Padova, 35100, Italy
| | - Fabrizio Fabris
- Dipartimento di Scienze Molecolari e Nanosistemi, Università Ca' Foscari di Venezia, Via Torino 155, Venezia Mestre, 30172, Italy
| | - Alessandro Scarso
- Dipartimento di Scienze Molecolari e Nanosistemi, Università Ca' Foscari di Venezia, Via Torino 155, Venezia Mestre, 30172, Italy
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2
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Wohlgemuth R. Synthesis of Metabolites and Metabolite-like Compounds Using Biocatalytic Systems. Metabolites 2023; 13:1097. [PMID: 37887422 PMCID: PMC10608848 DOI: 10.3390/metabo13101097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 10/13/2023] [Accepted: 10/15/2023] [Indexed: 10/28/2023] Open
Abstract
Methodologies for the synthesis and purification of metabolites, which have been developed following their discovery, analysis, and structural identification, have been involved in numerous life science milestones. The renewed focus on the small molecule domain of biological cells has also created an increasing awareness of the rising gap between the metabolites identified and the metabolites which have been prepared as pure compounds. The design and engineering of resource-efficient and straightforward synthetic methodologies for the production of the diverse and numerous metabolites and metabolite-like compounds have attracted much interest. The variety of metabolic pathways in biological cells provides a wonderful blueprint for designing simplified and resource-efficient synthetic routes to desired metabolites. Therefore, biocatalytic systems have become key enabling tools for the synthesis of an increasing number of metabolites, which can then be utilized as standards, enzyme substrates, inhibitors, or other products, or for the discovery of novel biological functions.
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Affiliation(s)
- Roland Wohlgemuth
- MITR, Institute of Applied Radiation Chemistry, Faculty of Chemistry, Lodz University of Technology, Zeromskiego Street 116, 90-924 Lodz, Poland;
- Swiss Coordination Committee Biotechnology (SKB), 8021 Zurich, Switzerland
- European Society of Applied Biocatalysis (ESAB), 1000 Brussels, Belgium
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3
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Orsy G, Shahmohammadi S, Forró E. A Sustainable Green Enzymatic Method for Amide Bond Formation. Molecules 2023; 28:5706. [PMID: 37570676 PMCID: PMC10419938 DOI: 10.3390/molecules28155706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 06/24/2023] [Accepted: 07/26/2023] [Indexed: 08/13/2023] Open
Abstract
A sustainable enzymatic strategy for the preparation of amides by using Candida antarctica lipase B as the biocatalyst and cyclopentyl methyl ether as a green and safe solvent was devised. The method is simple and efficient and it produces amides with excellent conversions and yields without the need for intensive purification steps. The scope of the reaction was extended to the preparation of 28 diverse amides using four different free carboxylic acids and seven primary and secondary amines, including cyclic amines. This enzymatic methodology has the potential to become a green and industrially reliable process for direct amide synthesis.
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Affiliation(s)
- György Orsy
- Institute of Pharmaceutical Chemistry, University of Szeged, Eötvös u. 6, H-6720 Szeged, Hungary; (G.O.); (S.S.)
| | - Sayeh Shahmohammadi
- Institute of Pharmaceutical Chemistry, University of Szeged, Eötvös u. 6, H-6720 Szeged, Hungary; (G.O.); (S.S.)
- Stereochemistry Research Group, Eötvös Loránd Research Network, University of Szeged, Eötvös u. 6, H-6720 Szeged, Hungary
| | - Enikő Forró
- Institute of Pharmaceutical Chemistry, University of Szeged, Eötvös u. 6, H-6720 Szeged, Hungary; (G.O.); (S.S.)
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Amaral MSS, Hearn MTW, Marriott PJ. Lipase-catalysed changes in essential oils revealed by comprehensive two-dimensional gas chromatography. Anal Bioanal Chem 2023:10.1007/s00216-023-04729-0. [PMID: 37184634 PMCID: PMC10184066 DOI: 10.1007/s00216-023-04729-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Revised: 04/28/2023] [Accepted: 05/02/2023] [Indexed: 05/16/2023]
Abstract
Candida antarctica lipase A (CALA) was applied for the chemo-selective enzymatic transesterification of terpene and phenyl alcohols in 35 different essential oil samples. Comprehensive two-dimensional gas chromatography with mass spectrometry (GC×GC‒MS) analysis enabled the separation and tentative identification of a cohort of 125 compounds, allowing the instant visualisation of the reaction process changes, amid the complex chemical background of the samples. The results indicate that 42 out of 79 alcohols so-identified were fully or partially esterified within 48 h of reaction, with primary alcohols being the substrates of preference of the enzyme (90-100% conversion), followed by secondary alcohols (mostly ~ 80-100% conversion). No significant conversion of tertiary alcohols and phenols was observed using the tested conditions. Overall, the enzyme's performance was consistent for primary alcohol substrates identified in multiple samples of different compositions. The observed selectivity, efficiency, robustness, scalability (enzyme/substrate working concentration ratio > 1:160), potential reusability, mild reaction conditions, and other factors make this process a greener and more sustainable alternative for industry applications, particularly for the manufacture of novel flavours and fragrances.
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Affiliation(s)
- Michelle S S Amaral
- Australian Centre for Research On Separation Science, School of Chemistry, Monash University, Wellington Road, Clayton, VIC, 3800, Australia
| | - Milton T W Hearn
- Australian Centre for Research On Separation Science, School of Chemistry, Monash University, Wellington Road, Clayton, VIC, 3800, Australia
| | - Philip J Marriott
- Australian Centre for Research On Separation Science, School of Chemistry, Monash University, Wellington Road, Clayton, VIC, 3800, Australia.
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5
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Quantitative assessment of enzymatic processes applied to flavour and fragrance standard compounds using gas chromatography with flame ionisation detection. J Chromatogr B Analyt Technol Biomed Life Sci 2022; 1209:123412. [PMID: 35970072 DOI: 10.1016/j.jchromb.2022.123412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Revised: 07/19/2022] [Accepted: 08/06/2022] [Indexed: 11/24/2022]
Abstract
The performance of different enzymes towards the bioprocessing of aroma-related compounds was investigated and a strategy based on GC-FID analysis was developed to facilitate assessment of the stages of characterisation, screening and optimisation, including chiral ratio determination. Characterisation included activity assays (UV-Vis and GC-FID), protein quantification (NanoDrop spectrophotometry) and molar mass estimation (SDS-PAGE electrophoresis). Screening experiments assessed different enzymes, substrates, solvents, acyl donors or mediators. Aroma-related substrates comprised terpene and phenolic compounds. The enzymes tested included the lipases CALA (Sigma-Aldrich), NZ-435, LZ-TLIM, NC-ADL, LZ-CALBL and the laccases NZ-51003 and DL-IIS (all from Novozymes). Among those, NZ-435 and NZ-51003 had the highest activities in the characterisation stage and, along with CALA, achieved conversions above 70% for citronellol (lipases) or 50% for eugenol (laccases) at the screening stage. The lipases had preference for the primary alcohol and laccases for phenolic compounds, among the tested substrates. The transesterification reaction between the lipase CALA and the standards mixture (citronellol, menthol, linalool) was used to demonstrate the optimisation stage, where the best levels of temperature, enzyme and acyl donor concentrations were investigated. Optimum conditions were found to be 37-40 °C, 3-4 mg/mL of enzyme and 58-60% (v/v) vinyl acetate. Additional confirmation experiments using the same terpene standards mixture and citronella oil sample, gave a conversion of > 95% for citronellol after 1 h (for both, standards mixture and sample), and 20% or 74% for menthol after 1 h or 24 h, respectively. None of the tested enzymes demonstrated significant enantioselectivity under the tested conditions. The GC-FID approach demonstrated here was suitable to determine the reaction profiles and chiral ratio variations for biocatalysed reactions with aroma compounds in low complexity samples. Advanced separations will be applied to more complex samples in the future.
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Alcántara AR, Domínguez de María P, Littlechild JA, Schürmann M, Sheldon RA, Wohlgemuth R. Biocatalysis as Key to Sustainable Industrial Chemistry. CHEMSUSCHEM 2022; 15:e202102709. [PMID: 35238475 DOI: 10.1002/cssc.202102709] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Revised: 02/10/2022] [Indexed: 06/14/2023]
Abstract
The role and power of biocatalysis in sustainable chemistry has been continuously brought forward step by step to its present outstanding position. The problem-solving capabilities of biocatalysis have been realized by numerous substantial achievements in biology, chemistry and engineering. Advances and breakthroughs in the life sciences and interdisciplinary cooperation with chemistry have clearly accelerated the implementation of biocatalytic synthesis in modern chemistry. Resource-efficient biocatalytic manufacturing processes have already provided numerous benefits to sustainable chemistry as well as customer-centric value creation in the pharmaceutical, food, flavor, fragrance, vitamin, agrochemical, polymer, specialty, and fine chemical industries. Biocatalysis can make significant contributions not only to manufacturing processes, but also to the design of completely new value-creation chains. Biocatalysis can now be considered as a key enabling technology to implement sustainable chemistry.
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Affiliation(s)
- Andrés R Alcántara
- Department of Chemistry in Pharmaceutical Sciences (QUICIFARM), Complutense University of Madrid (UCM), 28040-, Madrid, Spain
| | - Pablo Domínguez de María
- Sustainable Momentum, SL, Av. Ansite 3, 4-6, 35011, Las Palmas de Gran Canaria, Canary Is., Spain
| | - Jennifer A Littlechild
- Henry Wellcome Building for Biocatalysis, Biosciences, University of Exeter, Stocker Road, Exeter, EX4 4QD, United Kingdom
| | | | - Roger A Sheldon
- Molecular Sciences Institute, School of Chemistry, University of the Witwatersrand, Braamfontein, Johannesburg, South Africa
| | - Roland Wohlgemuth
- Institute of Molecular and Industrial Biotechnology, Lodz University of Technology, 90-537, Lodz, Poland
- Swiss Coordination Committee for Biotechnology, 8021, Zurich, Switzerland
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7
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Xue F, Li C, Xu Q. Biocatalytic approaches for the synthesis of optically pure vic-halohydrins. Appl Microbiol Biotechnol 2021; 105:3411-3421. [PMID: 33851239 DOI: 10.1007/s00253-021-11266-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2020] [Revised: 03/28/2021] [Accepted: 04/04/2021] [Indexed: 11/30/2022]
Abstract
Enantiopure vicinal halohydrins (vic-halohydrins) are highly valuable building blocks for the synthesis of many different natural products and pharmaceuticals, and biocatalytic methods for their synthesis have received considerable interest. This review emphasizes the application of biocatalytic approaches as an efficient alternative or complement to conventional chemical reactions, with a special focus on the asymmetric reductions catalyzed by ketoreductases, kinetic resolution catalyzed using lipases or esterases, stereoselective biotransformation catalyzed by halohydrin dehalogenases, asymmetric hydroxylation catalyzed by cytochrome P450 monooxygenases, asymmetric dehalogenation catalyzed by haloalkane dehalogenases, and aldehyde condensation catalyzed by aldolases. Although many chiral vic-halohydrins have been successfully synthesized using wild-type biocatalysts, their enantioselectivity is often too low for enantiopure synthesis. To overcome these limitations, catalytic properties of wild-type enzymes have been improved by rational and semi-rational protein design or directed evolution. This review briefly introduces the research status in this field, highlighting aspects of basic academic research in the biocatalytic synthesis of optically active vic-halohydrins by employing such unconventional approaches. KEY POINTS: • Outlines the enzymatic strategies for the production of enantiopure vic-halohydrins • Highlights recent advances in biocatalytic production of enantiopure vic-halohydrins • Provide guidance for efficient preparation of enantiopure vic-halohydrins.
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Affiliation(s)
- Feng Xue
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, NO 1, Wenyuan Road, Nanjing, 210023, People's Republic of China
| | - Changfan Li
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, NO 1, Wenyuan Road, Nanjing, 210023, People's Republic of China
| | - Qing Xu
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, NO 1, Wenyuan Road, Nanjing, 210023, People's Republic of China.
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8
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Oeggl R, Glaser J, von Lieres E, Rother D. Continuous enzymatic stirred tank reactor cascade with unconventional medium yielding high concentrations of ( S)-2-hydroxyphenyl propanone and its derivatives. Catal Sci Technol 2021. [DOI: 10.1039/d0cy01666g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
How can high product concentrations be continuously provided, while dealing with substrate toxicity? Which method leads to a straight forward product isolation? The example of a model based process intensification shows how.
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Affiliation(s)
- Reinhard Oeggl
- IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
- Aachen Biology and Biotechnology (ABBt), RWTH Aachen University, 52074 Aachen, Germany
| | - Juliane Glaser
- IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
- Digital Integration & Predictive Technologies (DIPT), Amgen Research (Munich) GmbH, Staffelseestr. 2, 81477 Munich, Germany
| | - Eric von Lieres
- IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
| | - Dörte Rother
- IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, 52425 Jülich, Germany
- Aachen Biology and Biotechnology (ABBt), RWTH Aachen University, 52074 Aachen, Germany
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9
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Webster AM, Peacock AFA. De novo designed coiled coils as scaffolds for lanthanides, including novel imaging agents with a twist. Chem Commun (Camb) 2021; 57:6851-6862. [DOI: 10.1039/d1cc02013g] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The design of artificial miniature lanthanide proteins, provide an opportunity to access new functional metalloproteins as well as insight into native lanthanide biochemistry.
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10
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Wohlgemuth R. Biocatalysis - Key enabling tools from biocatalytic one-step and multi-step reactions to biocatalytic total synthesis. N Biotechnol 2020; 60:113-123. [PMID: 33045418 DOI: 10.1016/j.nbt.2020.08.006] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Revised: 07/07/2020] [Accepted: 08/31/2020] [Indexed: 12/20/2022]
Abstract
In the area of human-made innovations to improve the quality of life, biocatalysis has already had a great impact and contributed enormously to a growing number of catalytic transformations aimed at the detection and analysis of compounds, the bioconversion of starting materials and the preparation of target compounds at any scale, from laboratory small scale to industrial large scale. The key enabling tools which have been developed in biocatalysis over the last decades also provide great opportunities for further development and numerous applications in various sectors of the global bioeconomy. Systems biocatalysis is a modular, bottom-up approach to designing the architecture of enzyme-catalyzed reaction steps in a synthetic route from starting materials to target molecules. The integration of biocatalysis and sustainable chemistry in vitro aims at ideal conversions with high molecular economy and their intensification. Retrosynthetic analysis in the chemical and biological domain has been a valuable tool for target-oriented synthesis while, on the other hand, diversity-oriented synthesis builds on forward-looking analysis. Bioinformatic tools for rapid identification of the required enzyme functions, efficient enzyme production systems, as well as generalized bioprocess design tools, are important for rapid prototyping of the biocatalytic reactions. The tools for enzyme engineering and the reaction engineering of each enzyme-catalyzed one-step reaction are also valuable for coupling reactions. The tools to overcome interaction issues with other components or enzymes are of great interest in designing multi-step reactions as well as in biocatalytic total synthesis.
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Affiliation(s)
- Roland Wohlgemuth
- Institute of Molecular and Industrial Biotechnology, Lodz University of Technology, Lodz, Poland; Swiss Coordination Committee on Biotechnology (SKB), Nordstrasse 15, 8021 Zürich, Switzerland.
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11
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Taheri-Kafrani A, Kharazmi S, Nasrollahzadeh M, Soozanipour A, Ejeian F, Etedali P, Mansouri-Tehrani HA, Razmjou A, Yek SMG, Varma RS. Recent developments in enzyme immobilization technology for high-throughput processing in food industries. Crit Rev Food Sci Nutr 2020; 61:3160-3196. [PMID: 32715740 DOI: 10.1080/10408398.2020.1793726] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
The demand for food and beverage markets has increased as a result of population increase and in view of health awareness. The quality of products from food processing industry has to be improved economically by incorporating greener methodologies that enhances the safety and shelf life via the enzymes application while maintaining the essential nutritional qualities. The utilization of enzymes is rendered more favorable in industrial practices via the modification of their characteristics as attested by studies on enzyme immobilization pertaining to different stages of food and beverage processing; these studies have enhanced the catalytic activity, stability of enzymes and lowered the overall cost. However, the harsh conditions of industrial processes continue to increase the propensity of enzyme destabilization thus shortening their industrial lifespan namely enzyme leaching, recoverability, uncontrollable orientation and the lack of a general procedure. Innovative studies have strived to provide new tools and materials for the development of systems offering new possibilities for industrial applications of enzymes. Herein, an effort has been made to present up-to-date developments on enzyme immobilization and current challenges in the food and beverage industries in terms of enhancing the enzyme stability.
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Affiliation(s)
- Asghar Taheri-Kafrani
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | - Sara Kharazmi
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | | | - Asieh Soozanipour
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | - Fatemeh Ejeian
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | - Parisa Etedali
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | | | - Amir Razmjou
- Department of Biotechnology, Faculty of Biological Science and Technology, University of Isfahan, Isfahan, Iran
| | - Samaneh Mahmoudi-Gom Yek
- Department of Chemistry, Faculty of Science, University of Qom, Qom, Iran.,Department of Chemistry, Bu-Ali Sina University, Hamedan, Iran
| | - Rajender S Varma
- Regional Centre of Advanced Technologies and Materials, Palacky University, Olomouc, Czech Republic
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12
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Enantioselective Transesterification of Allyl Alcohols with (E)-4-Arylbut-3-en-2-ol Motif by Immobilized Lecitase™ Ultra. Catalysts 2020. [DOI: 10.3390/catal10070798] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Abstract
Lecitase™ Ultra was immobilized on four different supports and tested for the first time as the biocatalyst in the kinetic resolution of racemic allyl alcohols with the (E)-4-arylbut-3-en-2-ol system in the process of transesterification. The most effective biocatalyst turned out to be the enzyme immobilized on agarose activated with cyanogen bromide (LU-CNBr). The best results (E > 200, ees and eep = 95–99%) were obtained for (E)-4-phenylbut-3-en-2-ol and its analog with a 2,5-dimethylphenyl ring whereas the lowest ee of kinetic resolution products (90%) was achieved for the substrate with a 4-methoxyphenyl substituent. For all substrates, (R)-enantiomers were esterified faster than their (S)-antipodes. The results showed that LU-CNBr is a versatile biocatalyst, showing high activity and enantioselectivity in a wide range of organic solvents in the presence of commonly used acyl donors. High operational stability of LU-CNBr allows it to be reused in three subsequent reaction cycles without negative effects on the efficiency and enantioselectivity of transesterification. This biocatalyst can become attractive to the commercial lipases in the process of the kinetic resolution of allyl alcohols.
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13
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Sheng X, Kazemi M, Planas F, Himo F. Modeling Enzymatic Enantioselectivity using Quantum Chemical Methodology. ACS Catal 2020. [DOI: 10.1021/acscatal.0c00983] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Xiang Sheng
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm SE-106 91, Sweden
| | - Masoud Kazemi
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm SE-106 91, Sweden
| | - Ferran Planas
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm SE-106 91, Sweden
| | - Fahmi Himo
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm SE-106 91, Sweden
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14
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Grommet AB, Feller M, Klajn R. Chemical reactivity under nanoconfinement. NATURE NANOTECHNOLOGY 2020; 15:256-271. [PMID: 32303705 DOI: 10.1038/s41565-020-0652-2] [Citation(s) in RCA: 304] [Impact Index Per Article: 76.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Accepted: 01/28/2020] [Indexed: 06/11/2023]
Abstract
Confining molecules can fundamentally change their chemical and physical properties. Confinement effects are considered instrumental at various stages of the origins of life, and life continues to rely on layers of compartmentalization to maintain an out-of-equilibrium state and efficiently synthesize complex biomolecules under mild conditions. As interest in synthetic confined systems grows, we are realizing that the principles governing reactivity under confinement are the same in abiological systems as they are in nature. In this Review, we categorize the ways in which nanoconfinement effects impact chemical reactivity in synthetic systems. Under nanoconfinement, chemical properties can be modulated to increase reaction rates, enhance selectivity and stabilize reactive species. Confinement effects also lead to changes in physical properties. The fluorescence of light emitters, the colours of dyes and electronic communication between electroactive species can all be tuned under confinement. Within each of these categories, we elucidate design principles and strategies that are widely applicable across a range of confined systems, specifically highlighting examples of different nanocompartments that influence reactivity in similar ways.
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Affiliation(s)
- Angela B Grommet
- Department of Organic Chemistry, Weizmann Institute of Science, Rehovot, Israel
| | - Moran Feller
- Department of Organic Chemistry, Weizmann Institute of Science, Rehovot, Israel
| | - Rafal Klajn
- Department of Organic Chemistry, Weizmann Institute of Science, Rehovot, Israel.
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15
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Hernández-Ibáñez S, Soares do Rego Barros O, Lahosa A, García-Muñoz MJ, Benlahrech M, Behloul C, Foubelo F, Yus M. Stereoselective synthesis of 5-(1-aminoalkyl)-2-pyrrolidones and 1,7-diazaspiro[4.5]decane-2,8-diones from chiral N-tert-butanesulfinyl imines and ethyl 4-nitrobutanoate. Tetrahedron 2020. [DOI: 10.1016/j.tet.2019.130842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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16
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Building Up Quaternary Stereocenters Through Biocatalyzed Direct Insertion of Carbon Nucleophiles on Ketones. European J Org Chem 2019. [DOI: 10.1002/ejoc.201900945] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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17
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Crystal structure of bacterial CYP116B5 heme domain: New insights on class VII P450s structural flexibility and peroxygenase activity. Int J Biol Macromol 2019; 140:577-587. [PMID: 31430491 DOI: 10.1016/j.ijbiomac.2019.08.141] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2019] [Revised: 08/16/2019] [Accepted: 08/16/2019] [Indexed: 11/22/2022]
Abstract
Class VII cytochromes P450 are self-sufficient enzymes carrying a phthalate family oxygenase-like reductase domain and a P450 domain fused in a single polypeptide chain. The biocatalytic applications of CYP116B members are limited by the need of the NADPH cofactor and the lack of crystal structures as a starting point for protein engineering. Nevertheless, we demonstrated that the heme domain of CYP116B5 can use hydrogen peroxide as electron donor bypassing the need of NADPH. Here, we report the crystal structure of CYP116B5 heme domain in complex with histidine at 2.6 Å of resolution. The structure reveals the typical P450 fold and a closed conformation with an active site cavity of 284 Å3 in volume, accommodating a histidine molecule forming a hydrogen bond with the water molecule present as 6th heme iron ligand. MD simulations in the absence of any ligand revealed the opening of a tunnel connecting the active site to the protein surface through the movement of F-, G- and H-helices. A structural alignment with bacterial cytochromes P450 allowed the identification of amino acids in the proximal heme site potentially involved in peroxygenase activity. The availability of the crystal structure provides the bases for the structure-guided design of new biocatalysts.
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Aguilar A, Twardowski T, Wohlgemuth R. Bioeconomy for Sustainable Development. Biotechnol J 2019; 14:e1800638. [PMID: 31106982 DOI: 10.1002/biot.201800638] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2019] [Revised: 04/04/2019] [Indexed: 01/12/2023]
Abstract
Bioeconomy is an emerging paradigm under which the creation, development, and revitalization of economic systems based on a sustainable use of renewable biological resources in a balanced way is rapidly spreading globally. Bioeconomy is building bridges between biotechnology and economy as well as between science, industry, and society. Biotechnology, from its ancient origins up to the present is at the core of the scientific and innovative foundation of bioeconomy policies developed in numerous countries. The challenges and perspectives of bioeconomies are immense, from resource-efficient large-scale manufacturing of products such as chemicals, materials, food, pharmaceuticals, polymers, flavors, and fragrances to the production of new biomaterials and bioenergy in a sustainable and economic way for a growing world population. Key success factors for different countries working on the bioeconomy vary widely from high-tech bioeconomies, emerging diversified or diversified bioeconomies to advanced and basic primary sector bioeconomies. Despite the large variety of bioeconomies, several common elements are identified, which are simultaneously needed altogether.
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Affiliation(s)
- Alfredo Aguilar
- Task Force Bioeconomy, European Federation of Biotechnology, Parc Científic Barcelona Torres R+D+I, Baldiri Reixac 4-8, 08028, Barcelona, Spain
| | - Tomasz Twardowski
- Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznan, 61704, Poland
| | - Roland Wohlgemuth
- Institute of Technical Biochemistry, Lodz University of Technology, Lodz, 90-924, Poland.,Swiss Coordination Committee for Biotechnology, Zürich, 8021, Switzerland.,ESAB (EFB Section on Applied Biocatalysis), Frankfurt, 60486, Germany
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19
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Yuan M, Kummer MJ, Milton RD, Quah T, Minteer SD. Efficient NADH Regeneration by a Redox Polymer-Immobilized Enzymatic System. ACS Catal 2019. [DOI: 10.1021/acscatal.9b00513] [Citation(s) in RCA: 68] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Mengwei Yuan
- Department of Chemistry, University of Utah, 315 S 1400 E, Salt Lake City, Utah 84112, United States
| | - Matthew J. Kummer
- Department of Chemistry, University of Utah, 315 S 1400 E, Salt Lake City, Utah 84112, United States
| | - Ross D. Milton
- Department of Chemistry, University of Utah, 315 S 1400 E, Salt Lake City, Utah 84112, United States
| | - Timothy Quah
- Department of Chemistry, University of Utah, 315 S 1400 E, Salt Lake City, Utah 84112, United States
| | - Shelley D. Minteer
- Department of Chemistry, University of Utah, 315 S 1400 E, Salt Lake City, Utah 84112, United States
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20
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Meissner MP, Süss P, Brundiek H, Woodley JM, von Langermann J. Scoping the Enantioselective Desymmetrization of a Poorly Water-Soluble Diester by Recombinant Pig Liver Esterase. Org Process Res Dev 2018. [DOI: 10.1021/acs.oprd.8b00277] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Murray P. Meissner
- Technical University of Denmark (DTU), Department of Chemical and Biochemical Engineering, Søltofts Plads, Building 229, 2800 Lyngby, Denmark
- Oxford Biotrans
Ltd., 127 Olympic Avenue, Milton Park OX14 4SA, United Kingdom
| | - Philipp Süss
- Enzymicals AG, Walther-Rathenau-Straße 49a, 17489 Greifswald, Germany
| | - Henrike Brundiek
- Enzymicals AG, Walther-Rathenau-Straße 49a, 17489 Greifswald, Germany
| | - John M. Woodley
- Technical University of Denmark (DTU), Department of Chemical and Biochemical Engineering, Søltofts Plads, Building 229, 2800 Lyngby, Denmark
| | - Jan von Langermann
- University of Rostock, Institute of Chemistry, Biocatalytic Synthesis Group, Albert-Einstein-Straße 3a, 18059 Rostock, Germany
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21
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Screening of organic solvents for bioprocesses using aqueous-organic two-phase systems. Biotechnol Adv 2018; 36:1801-1814. [DOI: 10.1016/j.biotechadv.2018.05.007] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2017] [Revised: 05/04/2018] [Accepted: 05/29/2018] [Indexed: 01/10/2023]
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23
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Discovering novel hydrolases from hot environments. Biotechnol Adv 2018; 36:2077-2100. [PMID: 30266344 DOI: 10.1016/j.biotechadv.2018.09.004] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2018] [Revised: 09/21/2018] [Accepted: 09/24/2018] [Indexed: 12/12/2022]
Abstract
Novel hydrolases from hot and other extreme environments showing appropriate performance and/or novel functionalities and new approaches for their systematic screening are of great interest for developing new processes, for improving safety, health and environment issues. Existing processes could benefit as well from their properties. The workflow, based on the HotZyme project, describes a multitude of technologies and their integration from discovery to application, providing new tools for discovering, identifying and characterizing more novel thermostable hydrolases with desired functions from hot terrestrial and marine environments. To this end, hot springs worldwide were mined, resulting in hundreds of environmental samples and thousands of enrichment cultures growing on polymeric substrates of industrial interest. Using high-throughput sequencing and bioinformatics, 15 hot spring metagenomes, as well as several sequenced isolate genomes and transcriptomes were obtained. To facilitate the discovery of novel hydrolases, the annotation platform Anastasia and a whole-cell bioreporter-based functional screening method were developed. Sequence-based screening and functional screening together resulted in about 100 potentially new hydrolases of which more than a dozen have been characterized comprehensively from a biochemical and structural perspective. The characterized hydrolases include thermostable carboxylesterases, enol lactonases, quorum sensing lactonases, gluconolactonases, epoxide hydrolases, and cellulases. Apart from these novel thermostable hydrolases, the project generated an enormous amount of samples and data, thereby allowing the future discovery of even more novel enzymes.
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Abstract
Background: Identification of organocatalysts functioning in aqueous environments will provide methods for more sustainable chemical transformations and allow tandem reactions with biocatalysts, like enzymes. Here we examine three water-soluble carbapenem antibiotics (meropenem, doripenem, and ertapenem) as secondary amine organocatalysts in aqueous environments. Methods: The Michael addition of nitromethane to cinnamaldehyde was used as the model reaction. The reactions were monitored by 1H NMR, and the enantioselectivity was determined by chiral HPLC. Results: The effects of buffer components, pH, organic co-solvents and anchoring into a protein scaffold were investigated. Moderate yields of the Michael addition were obtained in buffer alone. The use of methanol as a co-solvent in a ratio of 1:1 increases the yield by 50%. Anchoring of the catalysts into a protein backbone reverses the enatioselectivity of the reaction. Conclusions: Despite only moderate yields and enantioselectivities being obtained, this study lays the foundations for future development of efficient organocatalysis in aqueous environments.
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Affiliation(s)
| | | | - Yu-Hsuan Tsai
- Chemistry, Cardiff University, Cardiff, CF10 3AT, UK
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25
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Wohlgemuth R. Horizons of Systems Biocatalysis and Renaissance of Metabolite Synthesis. Biotechnol J 2018; 13:e1700620. [DOI: 10.1002/biot.201700620] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Revised: 04/26/2018] [Indexed: 12/12/2022]
Affiliation(s)
- Roland Wohlgemuth
- European Federation of Biotechnology; Section on Applied Biocatalysis (ESAB); Theodor-Heuss-Allee 25,Frankfurt am Main 60486 Germany
- Sigma-Aldrich; Member of Merck Group; Industriestrasse 25,Buchs 9470 Switzerland
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26
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Eichhorn E, Locher E, Guillemer S, Wahler D, Fourage L, Schilling B. Biocatalytic Process for (−)-Ambrox Production Using Squalene Hopene Cyclase. Adv Synth Catal 2018. [DOI: 10.1002/adsc.201800132] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Eric Eichhorn
- Givaudan Schweiz AG; Ueberlandstrasse 138 8600 Dübendorf Switzerland
| | - Esther Locher
- Givaudan Schweiz AG; Ueberlandstrasse 138 8600 Dübendorf Switzerland
| | - Sabrina Guillemer
- Protéus SA; 70, allée Graham Bell, Parc Georges Besse 30035 Nîmes Cedex 1 France
- PCAS; 2-8 rue de Rouen 78440 Porcheville France
| | - Denis Wahler
- Protéus SA; 70, allée Graham Bell, Parc Georges Besse 30035 Nîmes Cedex 1 France
- Givaudan France SAS; 3 rue des Satellites 31400 Toulouse France
| | - Laurent Fourage
- Protéus SA; 70, allée Graham Bell, Parc Georges Besse 30035 Nîmes Cedex 1 France
- Total RC Stratégie Développement Recherche; 2 Place Jean Millier 92078 Paris La Défense France
| | - Boris Schilling
- Givaudan Schweiz AG; Ueberlandstrasse 138 8600 Dübendorf Switzerland
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Guérard-Hélaine C, Heuson E, Ndiaye M, Gourbeyre L, Lemaire M, Hélaine V, Charmantray F, Petit JL, Salanoubat M, de Berardinis V, Gefflaut T. Stereoselective synthesis of γ-hydroxy-α-amino acids through aldolase-transaminase recycling cascades. Chem Commun (Camb) 2018; 53:5465-5468. [PMID: 28466909 DOI: 10.1039/c7cc00742f] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
Efficient bi-enzymatic cascades combining aldolases and α-transaminases were designed for the synthesis of γ-hydroxy-α-amino acids. These recycling cascades provide high stereoselectivity, atom economy, and an equilibrium shift of the transamination. l-syn or anti-4-hydroxyglutamic acid and d-anti-4,5-dihydroxynorvaline were thus prepared in 83-95% yield in one step from simple substrates.
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Affiliation(s)
- Christine Guérard-Hélaine
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, F-63000 Clermont-Ferrand, France.
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28
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The molecular basis for lipase stereoselectivity. Appl Microbiol Biotechnol 2018; 102:3487-3495. [DOI: 10.1007/s00253-018-8858-z] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2017] [Revised: 02/11/2018] [Accepted: 02/12/2018] [Indexed: 01/13/2023]
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29
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Zhou S, Rousselot-Pailley P, Ren L, Charmasson Y, Dezord EC, Robert V, Tron T, Mekmouche Y. Production and manipulation of blue copper oxidases for technological applications. Methods Enzymol 2018; 613:17-61. [DOI: 10.1016/bs.mie.2018.10.015] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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30
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López-Gallego F, Jackson E, Betancor L. Heterogeneous Systems Biocatalysis: The Path to the Fabrication of Self-Sufficient Artificial Metabolic Cells. Chemistry 2017; 23:17841-17849. [DOI: 10.1002/chem.201703593] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Indexed: 12/11/2022]
Affiliation(s)
- Fernando López-Gallego
- Heterogeneous biocatalysis group; CIC biomaGUNE; Edificio Empresarial “C”; Paseo de Miramón 182 20009 Donostia Spain
- IKERBASQUE; Basque Foundation for Science; Bilbao Spain
| | - Erienne Jackson
- Department of Biotechnology; Universidad ORT Uruguay; Mercedes 1237, CP 11100 Montevideo Uruguay
| | - Lorena Betancor
- Department of Biotechnology; Universidad ORT Uruguay; Mercedes 1237, CP 11100 Montevideo Uruguay
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31
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Dwivedee BP, Bhaumik J, Rai SK, Laha JK, Banerjee UC. Development of nanobiocatalysts through the immobilization of Pseudomonas fluorescens lipase for applications in efficient kinetic resolution of racemic compounds. BIORESOURCE TECHNOLOGY 2017; 239:464-471. [PMID: 28538202 DOI: 10.1016/j.biortech.2017.05.050] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2017] [Revised: 05/08/2017] [Accepted: 05/09/2017] [Indexed: 06/07/2023]
Abstract
The present work reports covalent immobilization of Pseudomonas fluorescens lipase (PFL) on functionalized multiwalled carbon nanotubes (MWCNTs) as a nanobiocatalyst (NBC). This nanobiocatalyst facilitates efficient kinetic resolution of (RS)-1-phenylethanol into (S)-1-phenylethanol [C=49.7%, eep=99.5%, ees=98.1% and E value=191.4]. The immobilized preparation (MWCNTs-PFL) showed ten-fold increase in activity, thermal stability upto 80 °C and recyclability (8 cycles). MWCNTs-PFL nanobioconjugate demonstrated better stability and enhanced activity compared to covalently immobilized PFL on other matrices (silver nanoparticles, gold nanoparticles and chitosan beads) used for the study. A statistical design [response surface methodology (RSM)] employed for the optimization of enzyme immobilization parameters made this study statistically more significant. Overall, the newly developed nanobiocatalyst has applications towards the kinetic resolution of racemic compounds.
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Affiliation(s)
- Bharat P Dwivedee
- Department of Pharmaceutical Technology (Biotechnology), National Institute of Pharmaceutical Education and Research, Sector 67, S.A.S. Nagar, 160062 Punjab, India
| | - Jayeeta Bhaumik
- Department of Pharmaceutical Technology (Biotechnology), National Institute of Pharmaceutical Education and Research, Sector 67, S.A.S. Nagar, 160062 Punjab, India.
| | - Shushil K Rai
- Department of Pharmaceutical Technology (Biotechnology), National Institute of Pharmaceutical Education and Research, Sector 67, S.A.S. Nagar, 160062 Punjab, India
| | - Joydev K Laha
- Department of Pharmaceutical Technology (Process Chemistry), National Institute of Pharmaceutical Education and Research, Sector 67, S.A.S. Nagar, 160062 Punjab, India
| | - Uttam C Banerjee
- Department of Pharmaceutical Technology (Biotechnology), National Institute of Pharmaceutical Education and Research, Sector 67, S.A.S. Nagar, 160062 Punjab, India.
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32
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Chu LL, Pandey RP, Lim HN, Jung HJ, Thuan NH, Kim TS, Sohng JK. Synthesis of umbelliferone derivatives in Escherichia coli and their biological activities. J Biol Eng 2017; 11:15. [PMID: 28396694 PMCID: PMC5382406 DOI: 10.1186/s13036-017-0056-5] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2017] [Accepted: 03/23/2017] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Umbelliferone, also known as 7-hydroxycoumarin, is a phenolic metabolite found in many familiar plants. Its derivatives have been shown to have various pharmacological and chemo-preventive effects on human health. A uridine diphosphate glycosyltransferase YjiC from Bacillus licheniformis DSM 13, a cytochrome P450BM3 (CYP450 BM3) variant namely mutant 13 (M13) from Bacillus megaterium, and an O-methyltransferase from Streptomyces avermitilis (SaOMT2) were used for modifications of umbelliferone. RESULTS Three umbelliferone derivatives (esculetin, skimmin, and herniarin) were generated through enzymatic and whole cell catalysis. To improve the efficiencies of biotransformation, different media, incubation time and concentration of substrate were optimized and the production was scaled up using a 3-L fermentor. The maximum yields of esculetin, skimmin, and herniarin were 337.10 μM (67.62%), 995.43 μM (99.54%), and 37.13 μM (37.13%), respectively. The water solubility of esculetin and skimmin were 1.28-folds and 3.98-folds as high as umbelliferone, respectively, whereas herniarin was 1.89-folds less soluble than umbelliferone. Moreover, the antibacterial and anticancer activities of herniarin showed higher than umbelliferone, esculetin and skimmin. CONCLUSIONS This study proves that both native and engineered enzymes could be employed for the production of precious compounds via whole cell biocatalysis. We successfully produced three molecules herniarin, esculetin and skimmin in practical amounts and their antibacterial and anticancer properties were accessed. One of the newly synthesized molecules the present research suggests that the combinatorial biosynthesis of different biosynthetic enzymes could rapidly promote to a novel secondary metabolite.
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Affiliation(s)
- Luan Luong Chu
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
| | - Ramesh Prasad Pandey
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea.,Department of BT-Convergent Pharmaceutical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
| | - Haet Nim Lim
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
| | - Hye Jin Jung
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea.,Department of BT-Convergent Pharmaceutical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
| | - Nguyen Huy Thuan
- Center for Molecular Biology, Institute of Research and Development, Duy Tan University, K7/25 Quang Trung, Danang, Vietnam
| | - Tae-Su Kim
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
| | - Jae Kyung Sohng
- Department of Life Science and Biochemical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea.,Department of BT-Convergent Pharmaceutical Engineering, Sun Moon University, 70 Sunmoon-ro 221, Tangjeong-myeon, Asan-si, Chungnam 31460 Republic of Korea
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Finnigan W, Thomas A, Cromar H, Gough B, Snajdrova R, Adams JP, Littlechild JA, Harmer NJ. Characterization of Carboxylic Acid Reductases as Enzymes in the Toolbox for Synthetic Chemistry. ChemCatChem 2017; 9:1005-1017. [PMID: 28450969 PMCID: PMC5396282 DOI: 10.1002/cctc.201601249] [Citation(s) in RCA: 86] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2016] [Revised: 11/14/2016] [Indexed: 11/26/2022]
Abstract
Carboxylic acid reductase enzymes (CARs) meet the demand in synthetic chemistry for a green and regiospecific route to aldehydes from their respective carboxylic acids. However, relatively few of these enzymes have been characterized. A sequence alignment with members of the ANL (Acyl‐CoA synthetase/ NRPS adenylation domain/Luciferase) superfamily of enzymes shed light on CAR functional dynamics. Four unstudied enzymes were selected by using a phylogenetic analysis of known and hypothetical CARs, and for the first time, a thorough biochemical characterization was performed. Kinetic analysis of these enzymes with various substrates shows that they have a broad but similar substrate specificity. Electron‐rich acids are favored, which suggests that the first step in the proposed reaction mechanism, attack by the carboxylate on the α‐phosphate of adenosine triphosphate (ATP), is the step that determines the substrate specificity and reaction kinetics. The effects of pH and temperature provide a clear operational window for the use of these CARs, whereas an investigation of product inhibition by NADP+, adenosine monophosphate, and pyrophosphate indicates that the binding of substrates at the adenylation domain is ordered with ATP binding first. This study consolidates CARs as important and exciting enzymes in the toolbox for sustainable chemistry and provides specifications for their use as a biocatalyst.
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Affiliation(s)
- William Finnigan
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
| | - Adam Thomas
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
| | - Holly Cromar
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
| | - Ben Gough
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
| | - Radka Snajdrova
- Synthetic Chemistry, AC-API Chem-UK, GlaxoSmithKline R&D Ltd Medicines Research Centre Gunnels Wood Road Stevenage Hertfordshire SG1 2NY UK
| | - Joseph P Adams
- Synthetic Chemistry, AC-API Chem-UK, GlaxoSmithKline R&D Ltd Medicines Research Centre Gunnels Wood Road Stevenage Hertfordshire SG1 2NY UK
| | - Jennifer A Littlechild
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
| | - Nicholas J Harmer
- Biosciences, College of Life and Environmental Sciences University of Exeter, Stocker Road Devon Exeter EX4 4QD UK
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35
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Alalla A, Merabet-Khelassi M, Riant O, Aribi-Zouioueche L. Easy kinetic resolution of some β-amino alcohols by Candida antarctica lipase B catalyzed hydrolysis in organic media. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.tetasy.2016.10.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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36
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Emergence of a catalytic tetrad during evolution of a highly active artificial aldolase. Nat Chem 2016; 9:50-56. [DOI: 10.1038/nchem.2596] [Citation(s) in RCA: 202] [Impact Index Per Article: 25.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2016] [Accepted: 07/12/2016] [Indexed: 12/24/2022]
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37
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Cannatelli MD, Ragauskas AJ. Two Decades of Laccases: Advancing Sustainability in the Chemical Industry. CHEM REC 2016; 17:122-140. [PMID: 27492131 DOI: 10.1002/tcr.201600033] [Citation(s) in RCA: 59] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Indexed: 12/30/2022]
Abstract
Given the current state of environmental affairs and that our future on this planet as we know it is in jeopardy, research and development into greener and more sustainable technologies within the chemical and forest products industries is at its peak. Given the global scale of these industries, the need for environmentally benign practices is propelling new green processes. These challenges are also impacting academic research and our reagents of interest are laccases. These enzymes are employed in a variety of biotechnological applications due to their native function as catalytic oxidants. They are about as green as it gets when it comes to chemical processes, requiring O2 as their only co-substrate and producing H2 O as the sole by-product. The following account will review our twenty year journey on the use of these enzymes within our research group, from their initial use in biobleaching of kraft pulps and for fiber modification within the pulp and paper industry, to their current application as green catalytic oxidants in the field of synthetic organic chemistry.
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Affiliation(s)
- Mark D Cannatelli
- Renewable Bioproducts Institute, School of Chemistry & Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA.,Joint Institute for Biological Sciences, Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Arthur J Ragauskas
- Renewable Bioproducts Institute, School of Chemistry & Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA.,Joint Institute for Biological Sciences, Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA.,Department of Chemical & Biomolecular Engineering, Department of Forestry, Wildlife & Fisheries, University of Tennessee, Knoxville, TN 37996, USA
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38
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Ecofriendly syntheses of phenothiazones and related structures facilitated by laccase – a comparative study. Tetrahedron Lett 2016. [DOI: 10.1016/j.tetlet.2016.07.016] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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39
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Stellmacher L, Sandalova T, Schneider S, Schneider G, Sprenger GA, Samland AK. Novel mode of inhibition by D-tagatose 6-phosphate through a Heyns rearrangement in the active site of transaldolase B variants. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY 2016; 72:467-76. [PMID: 27050126 DOI: 10.1107/s2059798316001170] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2015] [Accepted: 01/19/2016] [Indexed: 01/06/2023]
Abstract
Transaldolase B (TalB) and D-fructose-6-phosphate aldolase A (FSAA) from Escherichia coli are C-C bond-forming enzymes. Using kinetic inhibition studies and mass spectrometry, it is shown that enzyme variants of FSAA and TalB that exhibit D-fructose-6-phosphate aldolase activity are inhibited covalently and irreversibly by D-tagatose 6-phosphate (D-T6P), whereas no inhibition was observed for wild-type transaldolase B from E. coli. The crystal structure of the variant TalB(F178Y) with bound sugar phosphate was solved to a resolution of 1.46 Å and revealed a novel mode of covalent inhibition. The sugar is bound covalently via its C2 atom to the ℇ-NH2 group of the active-site residue Lys132. It is neither bound in the open-chain form nor as the closed-ring form of D-T6P, but has been converted to β-D-galactofuranose 6-phosphate (D-G6P), a five-membered ring structure. The furanose ring of the covalent adduct is formed via a Heyns rearrangement and subsequent hemiacetal formation. This reaction is facilitated by Tyr178, which is proposed to act as acid-base catalyst. The crystal structure of the inhibitor complex is compared with the structure of the Schiff-base intermediate of TalB(E96Q) formed with the substrate D-fructose 6-phosphate determined to a resolution of 2.20 Å. This comparison highlights the differences in stereochemistry at the C4 atom of the ligand as an essential determinant for the formation of the inhibitor adduct in the active site of the enzyme.
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Affiliation(s)
- Lena Stellmacher
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70550 Stuttgart, Germany
| | - Tatyana Sandalova
- Science for Life Laboratory, Department of Medicine, Solna, Karolinska Institutet, 17 165 Stockholm, Sweden
| | - Sarah Schneider
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70550 Stuttgart, Germany
| | - Gunter Schneider
- Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 17 177 Stockholm, Sweden
| | - Georg A Sprenger
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70550 Stuttgart, Germany
| | - Anne K Samland
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70550 Stuttgart, Germany
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40
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Kanemitsu T, Inoue M, Yoshimura N, Yoneyama K, Watarai R, Miyazaki M, Odanaka Y, Nagata K, Itoh T. A Concise One-Pot Organo- and Biocatalyzed Preparation of Enantiopure Hexahydrofuro[2,3-b]furan-3-ol: An Approach to the Synthesis of HIV Protease Inhibitors. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600062] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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41
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Bandeira PT, Alnoch RC, de Oliveira AR, de Souza EM, de O. Pedrosa F, Krieger N, Piovan L. Enzymatic kinetic resolution of aliphatic sec -alcohols by LipG9, a metagenomic lipase. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.molcatb.2015.12.010] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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42
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Abstract
Biocatalysis is a growing area of synthetic and process chemistry with the ability to deliver not only improved processes for the synthesis of existing compounds, but also new routes to new compounds.
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Affiliation(s)
- R. H. Ringborg
- CAPEC-PROCESS Research Center
- Department of Chemical and Biochemical Engineering
- Technical University of Denmark
- DK-2800 Lyngby
- Denmark
| | - J. M. Woodley
- CAPEC-PROCESS Research Center
- Department of Chemical and Biochemical Engineering
- Technical University of Denmark
- DK-2800 Lyngby
- Denmark
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43
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Diederichs S, Linn K, Lückgen J, Klement T, Grosch JH, Honda K, Ohtake H, Büchs J. High-level production of (5S)-hydroxyhexane-2-one by two thermostable oxidoreductases in a whole-cell catalytic approach. ACTA ACUST UNITED AC 2015. [DOI: 10.1016/j.molcatb.2015.08.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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44
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Cannatelli MD, Ragauskas AJ. Laccase-catalyzed synthesis of 2,3-ethylenedithio-1,4-quinones. ACTA ACUST UNITED AC 2015. [DOI: 10.1016/j.molcatb.2015.05.016] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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45
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Carnero A, Sanghvi YS, Gotor V, Fernández S, Ferrero M. Process Development of Biocatalytic Regioselective 5′-O-Levulinylation of 2′-Deoxynucleosides. Org Process Res Dev 2015. [DOI: 10.1021/acs.oprd.5b00152] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alejandro Carnero
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Yogesh S. Sanghvi
- Rasayan Inc., 2802 Crystal
Ridge Road, Encinitas, California 92024-6615, United States
| | - Vicente Gotor
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Susana Fernández
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
| | - Miguel Ferrero
- Departamento
de Química Orgánica e Inorgánica and Instituto
Universitario de Biotecnología de Asturias, Universidad de Oviedo, 33006 Oviedo, Asturias, Spain
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46
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Are Lipases Still Important Biocatalysts? A Study of Scientific Publications and Patents for Technological Forecasting. PLoS One 2015; 10:e0131624. [PMID: 26111144 PMCID: PMC4482018 DOI: 10.1371/journal.pone.0131624] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Accepted: 06/05/2015] [Indexed: 11/19/2022] Open
Abstract
The great potential of lipases is known since 1930 when the work of J. B. S. Haldane was published. After eighty-five years of studies and developments, are lipases still important biocatalysts? For answering this question the present work investigated the technological development of four important industrial sectors where lipases are applied: production of detergent formulations; organic synthesis, focusing on kinetic resolution, production of biodiesel, and production of food and feed products. The analysis was made based on research publications and patent applications, working as scientific and technological indicators, respectively. Their evolution, interaction, the major players of each sector and the main subject matters disclosed in patent documents were discussed. Applying the concept of technology life cycle, S-curves were built by plotting cumulative patent data over time to monitor the attractiveness of each technology for investment. The results lead to a conclusion that the use of lipases as biocatalysts is still a relevant topic for the industrial sector, but developments are still needed for lipase biocatalysis to reach its full potential, which are expected to be achieved within the third, and present, wave of biocatalysis.
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47
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Ihssen J, Reiss R, Luchsinger R, Thöny-Meyer L, Richter M. Biochemical properties and yields of diverse bacterial laccase-like multicopper oxidases expressed in Escherichia coli. Sci Rep 2015; 5:10465. [PMID: 26068013 PMCID: PMC4464401 DOI: 10.1038/srep10465] [Citation(s) in RCA: 77] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2014] [Accepted: 04/15/2015] [Indexed: 11/09/2022] Open
Abstract
Laccases are multi-copper oxidases that oxidize a broad range of substrates at the expense of molecular oxygen, without any need for co-factor regeneration. These enzymes bear high potential for the sustainable synthesis of fine chemicals and the modification of (bio)polymers. Here we describe cloning and expression of five novel bacterial laccase-like multi copper oxidases (LMCOs) of diverse origin which were identified by homology searches in online databases. Activity yields under different expression conditions and temperature stabilities were compared to three previously described enzymes from Bacillus subtilis, Bacillus pumilus and Bacillus clausii. In almost all cases, a switch to oxygen-limited growth conditions after induction increased volumetric activity considerably. For proteins with predicted signal peptides for secretion, recombinant expression with and without signal sequence was investigated. Bacillus CotA-type LMCOs outperformed enzymes from Streptomyces and Gram-negative bacteria with respect to activity yields in Escherichia coli and application relevant biochemical properties. The novel Bacillus coagulans LMCO combined high activity yields in E. coli with unprecedented activity at strong alkaline pH and high storage stability, making it a promising candidate for further development.
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Affiliation(s)
- Julian Ihssen
- Empa, Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biointerfaces, Lerchenfeldstr.5, 9014 St. Gallen, Switzerland
| | - Renate Reiss
- Empa, Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biointerfaces, Lerchenfeldstr.5, 9014 St. Gallen, Switzerland
| | - Ronny Luchsinger
- Empa, Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biointerfaces, Lerchenfeldstr.5, 9014 St. Gallen, Switzerland
| | - Linda Thöny-Meyer
- Empa, Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biointerfaces, Lerchenfeldstr.5, 9014 St. Gallen, Switzerland
| | - Michael Richter
- Empa, Swiss Federal Laboratories for Materials Science and Technology, Laboratory for Biointerfaces, Lerchenfeldstr.5, 9014 St. Gallen, Switzerland
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48
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Easy preparation of enantiomerically enriched heteroaromatic alcohols through lipase-catalyzed acylation with succinic anhydride under unconventional activation. Bioprocess Biosyst Eng 2015; 38:1579-88. [DOI: 10.1007/s00449-015-1400-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Accepted: 04/08/2015] [Indexed: 10/23/2022]
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49
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Cannatelli MD, Ragauskas AJ. Laccase-catalyzed α-arylation of benzoylacetonitrile with substituted hydroquinones. Chem Eng Res Des 2015. [DOI: 10.1016/j.cherd.2014.08.021] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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50
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Cunha E, Pinto PCAG, Saraiva MLMFS. Evaluation of ionic liquids as alternative solvents for aldolase activity: Use of a new automated SIA methodology. Talanta 2015; 141:293-9. [PMID: 25966417 DOI: 10.1016/j.talanta.2015.04.028] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2014] [Revised: 04/02/2015] [Accepted: 04/07/2015] [Indexed: 11/16/2022]
Abstract
An automated methodology is proposed for the evaluation of a set of ionic liquids (ILs) as alternative reaction media for aldolase based synthetic processes. For that, the effect of traditionally used organic solvents and ILs on the activity of aldolase was studied by means of a novel automated methodology. The implemented methodology is based on the concept of sequential injection analysis (SIA) and relies on the aldolase based cleavage of d-fructose-1,6 diphosphate (DFDP), to produce dihydroxyacetone phosphate (DHAP) and d-glyceraldehyde-3-phosphate (G3P). In the presence of FeCl3, 3-methyl-2-benzothiazoline hydrazine (MBTH) forms a blue cation that can be measured at 670nm, by combination with G3P. The influence of several parameters such as substrate and enzyme concentration, temperature, delay time and MBTH and FeCl3 concentration were studied and the optimum reaction conditions were subsequently selected. The developed methodology showed good precision and a relative standard deviation (rsd) that does not exceed 7% also leading to low reagents consumption as well as effluent production. Resorting to this strategy, the activity of the enzyme was studied in strictly aqueous media and in the presence of dimethylformamide, methanol, bmpyr [Cl], hmim [Cl], bmim [BF4], emim [BF4], emim [Ac], bmim [Cl], emim [TfMs], emim [Ms] and Chol [Ac] up to 50%. The results show that the utilization of ILs as reaction media for aldolase based organic synthesis might present potential advantages over the tested conventional organic solvents. The least toxic IL found in this study was cho [Ac] that causes a reduction of enzyme activity of only 2.7% when used in a concentration of 50%. Generally, it can be concluded that ILs based on choline or short alkyl imidazolium moieties associated with biocompatible anions are the most promising ILs regarding the future inclusion of these solvents in synthetic protocols catalyzed by aldolase.
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Affiliation(s)
- Edite Cunha
- REQUIMTE, Departamento de Ciências Químicas, Faculdade de Farmácia, Universidade do Porto, Rua Jorge Viterbo Ferreira no 228, 4050-313 Porto, Portugal
| | - Paula C A G Pinto
- REQUIMTE, Departamento de Ciências Químicas, Faculdade de Farmácia, Universidade do Porto, Rua Jorge Viterbo Ferreira no 228, 4050-313 Porto, Portugal.
| | - M Lúcia M F S Saraiva
- REQUIMTE, Departamento de Ciências Químicas, Faculdade de Farmácia, Universidade do Porto, Rua Jorge Viterbo Ferreira no 228, 4050-313 Porto, Portugal.
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