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Liu Y, Lai KL, Vong K. Transition Metal Scaffolds Used To Bring New‐to‐Nature Reactions into Biological Systems. Eur J Inorg Chem 2022. [DOI: 10.1002/ejic.202200215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Yifei Liu
- Department of Chemistry The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon Hong Kong China
| | - Ka Lun Lai
- Department of Chemistry The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon Hong Kong China
| | - Kenward Vong
- Department of Chemistry The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon Hong Kong China
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2
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Baiyoumy A, Vallapurackal J, Schwizer F, Heinisch T, Kardashliev T, Held M, Panke S, Ward TR. Directed Evolution of a Surface-Displayed Artificial Allylic Deallylase Relying on a GFP Reporter Protein. ACS Catal 2021; 11:10705-10712. [PMID: 34504734 PMCID: PMC8419837 DOI: 10.1021/acscatal.1c02405] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Revised: 07/26/2021] [Indexed: 12/14/2022]
Abstract
Artificial metalloenzymes (ArMs) combine characteristics of both homogeneous catalysts and enzymes. Merging abiotic and biotic features allows for the implementation of new-to-nature reactions in living organisms. Here, we present the directed evolution of an artificial metalloenzyme based on Escherichia coli surface-displayed streptavidin (SavSD hereafter). Through the binding of a ruthenium-pianostool cofactor to SavSD, an artificial allylic deallylase (ADAse hereafter) is assembled, which displays catalytic activity toward the deprotection of alloc-protected 3-hydroxyaniline. The uncaged aminophenol acts as a gene switch and triggers the overexpression of a fluorescent green fluorescent protein (GFP) reporter protein. This straightforward readout of ADAse activity allowed the simultaneous saturation mutagenesis of two amino acid residues in Sav near the ruthenium cofactor, expediting the screening of 2762 individual clones. A 1.7-fold increase of in vivo activity was observed for SavSD S112T-K121G compared to the wild-type SavSD (wt-SavSD). Finally, the best performing Sav isoforms were purified and tested in vitro (SavPP hereafter). For SavPP S112M-K121A, a total turnover number of 372 was achieved, corresponding to a 5.9-fold increase vs wt-SavPP. To analyze the marked difference in activity observed between the surface-displayed and purified ArMs, the oligomeric state of SavSD was determined. For this purpose, crosslinking experiments of E. coli cells overexpressing SavSD were carried out, followed by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and Western blot. The data suggest that SavSD is most likely displayed as a monomer on the surface of E. coli. We hypothesize that the difference between the in vivo and in vitro screening results may reflect the difference in the oligomeric state of SavSD vs soluble SavPP (monomeric vs tetrameric). Accordingly, care should be applied when evolving oligomeric proteins using E. coli surface display.
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Affiliation(s)
- Alain Baiyoumy
- Department
of Chemistry, University of Basel, Mattenstrasse 24a, 4058 Basel, Switzerland
- Molecular
Systems Engineering, National Competence
Center in Research (NCCR), 4058 Basel, Switzerland
| | - Jaicy Vallapurackal
- Department
of Chemistry, University of Basel, Mattenstrasse 24a, 4058 Basel, Switzerland
- Molecular
Systems Engineering, National Competence
Center in Research (NCCR), 4058 Basel, Switzerland
| | - Fabian Schwizer
- Department
of Chemistry, University of Basel, Mattenstrasse 24a, 4058 Basel, Switzerland
| | - Tillmann Heinisch
- Department
of Chemistry, University of Basel, Mattenstrasse 24a, 4058 Basel, Switzerland
| | | | - Martin Held
- ETH
Zürich, D-BSSE, Mattenstrasse 26, 4058 Basel, Switzerland
| | - Sven Panke
- ETH
Zürich, D-BSSE, Mattenstrasse 26, 4058 Basel, Switzerland
- Molecular
Systems Engineering, National Competence
Center in Research (NCCR), 4058 Basel, Switzerland
| | - Thomas R. Ward
- Department
of Chemistry, University of Basel, Mattenstrasse 24a, 4058 Basel, Switzerland
- Molecular
Systems Engineering, National Competence
Center in Research (NCCR), 4058 Basel, Switzerland
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Kato S, Onoda A, Taniguchi N, Schwaneberg U, Hayashi T. Directed Evolution of a Cp*Rh III -Linked Biohybrid Catalyst Based on a Screening Platform with Affinity Purification. Chembiochem 2020; 22:679-685. [PMID: 33026156 PMCID: PMC7894531 DOI: 10.1002/cbic.202000681] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Indexed: 12/12/2022]
Abstract
Directed evolution of Cp*RhIII‐linked nitrobindin (NB), a biohybrid catalyst, was performed based on an in vitro screening approach. A key aspect of this effort was the establishment of a high‐throughput screening (HTS) platform that involves an affinity purification step employing a starch‐agarose resin for a maltose binding protein (MBP) tag. The HTS platform enables efficient preparation of the purified MBP‐tagged biohybrid catalysts in a 96‐well format and eliminates background influence of the host E. coli cells. Three rounds of directed evolution and screening of more than 4000 clones yielded a Cp*RhIII‐linked NB(T98H/L100K/K127E) variant with a 4.9‐fold enhanced activity for the cycloaddition of acetophenone oximes with alkynes. It is confirmed that this HTS platform for directed evolution provides an efficient strategy for generating highly active biohybrid catalysts incorporating a synthetic metal cofactor.
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Affiliation(s)
- Shunsuke Kato
- Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Akira Onoda
- Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka, 565-0871, Japan.,Faculty of Environmental Earth Science, Hokkaido University, North 10 West 5, Kita-ku, Sapporo, Hokkaido, 060-0810, Japan
| | - Naomasa Taniguchi
- Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Ulrich Schwaneberg
- Institute of Biotechnology, RWTH Aachen University, Worringerweg 3, Aachen, 52074, Germany
| | - Takashi Hayashi
- Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka, 565-0871, Japan
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Kariyawasam K, Di Meo T, Hammerer F, Valerio-Lepiniec M, Sciortino G, Maréchal JD, Minard P, Mahy JP, Urvoas A, Ricoux R. An Artificial Hemoprotein with Inducible Peroxidase- and Monooxygenase-Like Activities. Chemistry 2020; 26:14929-14937. [PMID: 32588931 DOI: 10.1002/chem.202002434] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2020] [Revised: 06/25/2020] [Indexed: 12/24/2022]
Abstract
A novel inducible artificial metalloenzyme obtained by covalent attachment of a manganese(III)-tetraphenylporphyrin (MnTPP) to the artificial bidomain repeat protein, (A3A3')Y26C, is reported. The protein is part of the αRep family. The biohybrid was fully characterized by MALDI-ToF mass spectrometry, circular dichroism and UV/Vis spectroscopies. The peroxidase and monooxygenase activities were evaluated on the original and modified scaffolds including those that have a) an additional imidazole, b) a specific αRep bA3-2 that is known to induce the opening of the (A3A3') interdomain region and c) a derivative of the αRep bA3-2 inducer extended with a His6 -Tag (His6 -bA3-2). Catalytic profiles are highly dependent on the presence of co-catalysts with the best activity obtained with His6 -bA3-2. The entire mechanism was rationalized by an integrative molecular modeling study that includes protein-ligand docking and large-scale molecular dynamics. This constitutes the first example of an entirely artificial metalloenzyme with inducible peroxidase and monooxygenase activities, reminiscent of allosteric regulation of natural enzymatic pathways.
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Affiliation(s)
- Kalani Kariyawasam
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182 CNRS, Laboratoire de Chimie Bioorganique et Bioinorganique, Bât. 420, Université Paris-sud, Université Paris-Saclay, 91405, Orsay cedex, France
| | - Thibault Di Meo
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182 CNRS, Laboratoire de Chimie Bioorganique et Bioinorganique, Bât. 420, Université Paris-sud, Université Paris-Saclay, 91405, Orsay cedex, France.,Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette cedex, France
| | - Fabien Hammerer
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182 CNRS, Laboratoire de Chimie Bioorganique et Bioinorganique, Bât. 420, Université Paris-sud, Université Paris-Saclay, 91405, Orsay cedex, France
| | - Marie Valerio-Lepiniec
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette cedex, France
| | - Giuseppe Sciortino
- Departament de Química, Universitat Autònoma de Barcelona, Edifici C.n., 08193, Cerdanyola del Vallés, Barcelona, Spain
| | - Jean-Didier Maréchal
- Departament de Química, Universitat Autònoma de Barcelona, Edifici C.n., 08193, Cerdanyola del Vallés, Barcelona, Spain
| | - Philippe Minard
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette cedex, France
| | - Jean-Pierre Mahy
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182 CNRS, Laboratoire de Chimie Bioorganique et Bioinorganique, Bât. 420, Université Paris-sud, Université Paris-Saclay, 91405, Orsay cedex, France
| | - Agathe Urvoas
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette cedex, France
| | - Rémy Ricoux
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182 CNRS, Laboratoire de Chimie Bioorganique et Bioinorganique, Bât. 420, Université Paris-sud, Université Paris-Saclay, 91405, Orsay cedex, France
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5
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Markel U, Sauer DF, Schiffels J, Okuda J, Schwaneberg U. Towards the Evolution of Artificial Metalloenzymes—A Protein Engineer's Perspective. Angew Chem Int Ed Engl 2019; 58:4454-4464. [DOI: 10.1002/anie.201811042] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Indexed: 12/23/2022]
Affiliation(s)
- Ulrich Markel
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Daniel F. Sauer
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Johannes Schiffels
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
| | - Jun Okuda
- Institute of Inorganic Chemistry RWTH Aachen University Landoltweg 1 52056 Aachen Germany
| | - Ulrich Schwaneberg
- DWI Leibniz-Institute for Interactive Materials Forckenbeckstrasse 50 52074 Aachen Germany
- Institute of Biotechnology RWTH Aachen University Worringer Weg 3 52074 Aachen Germany
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6
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Markel U, Sauer DF, Schiffels J, Okuda J, Schwaneberg U. Auf dem Weg zur Evolution artifizieller Metalloenzyme – aus einem Protein‐Engineering‐Blickwinkel. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201811042] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Ulrich Markel
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Daniel F. Sauer
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Johannes Schiffels
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
| | - Jun Okuda
- Institut für Anorganische Chemie RWTH Aachen Landoltweg 1 52056 Aachen Deutschland
| | - Ulrich Schwaneberg
- DWI Leibniz-Institut für Interaktive Materialien Forckenbeckstraße 50 52074 Aachen Deutschland
- Institut für Biotechnologie RWTH Aachen Worringer Weg 3 52074 Aachen Deutschland
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7
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Leurs M, Dorn B, Wilhelm S, Manisegaran M, Tiller JC. Multicore Artificial Metalloenzymes Derived from Acylated Proteins as Catalysts for the Enantioselective Dihydroxylation and Epoxidation of Styrene Derivatives. Chemistry 2018; 24:10859-10867. [DOI: 10.1002/chem.201802185] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Indexed: 12/12/2022]
Affiliation(s)
- Melanie Leurs
- Chair of Biomaterials and Polymer Science, Department of Biochemical and Chemical Engineering; TU Dortmund; Emil-Figge-Str. 66 44227 Dortmund Germany
| | - Bjoern Dorn
- Chair of Biomaterials and Polymer Science, Department of Biochemical and Chemical Engineering; TU Dortmund; Emil-Figge-Str. 66 44227 Dortmund Germany
| | - Sascha Wilhelm
- Chair of Biomaterials and Polymer Science, Department of Biochemical and Chemical Engineering; TU Dortmund; Emil-Figge-Str. 66 44227 Dortmund Germany
| | - Magiliny Manisegaran
- Chair of Biomaterials and Polymer Science, Department of Biochemical and Chemical Engineering; TU Dortmund; Emil-Figge-Str. 66 44227 Dortmund Germany
| | - Joerg. C. Tiller
- Chair of Biomaterials and Polymer Science, Department of Biochemical and Chemical Engineering; TU Dortmund; Emil-Figge-Str. 66 44227 Dortmund Germany
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