1
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Chandnani M, Patel D, Patel T, Buch A. Tartrate Dehydrogenase in Bacillus Species: Deciphering Unique Catalytic Diversity Through Kinetic, Structural and Molecular Docking Analysis. Protein J 2024; 43:96-114. [PMID: 38127181 DOI: 10.1007/s10930-023-10170-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/16/2023] [Indexed: 12/23/2023]
Abstract
Divergently evolved Tartrate dehydrogenase (TDH) exhibits multiple catalytic activities at a single active site; the enzyme from P. putida (pTDH) being structurally and biochemically well-characterized. Occurrence of TDH-associated ability to aerobically metabolize L-tartrate in Bacillus isolates and limited resemblance of ycsA-encoded protein sequences with pTDH rendered Bacillus TDH as an intriguing enzyme with possible catalytic diversity as well as evolutionary significance. The present study explores substrate interactions of TDHs from B. subtilis 168 (168bTDH) and B. licheniformis DSM-13 (429bTDH) through kinetic, structural and molecular docking-based analysis. Heterologously expressed bTDHs, purified from insoluble fractions of E. coli BL21(DE3) cells, could significantly catalyze L-tartrate and meso-tartrate as substrates in forward reaction. Unlike pTDH, bTDHs distinctly and more efficiently catalyzed the reverse reaction using dihydroxyfumarate substrate following sigmoidal kinetics; the ability being ~ 4 fold higher in 168bTDH. Their binding energies predicted from molecular docking, further substantiated the relative substrate specificities, while revealing major residues involved in protein-ligand interactions at active site. The kinetic analysis and homology modelling validated using Ramachandran Plot analysis predicted a dimeric nature for bTDH. Collectively, the results highlight unique catalytic potential of phylogenetically recent bTDHs, offering an important protein engineering target to mediate efficient enantioselective enzymatic biotransformations.
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Affiliation(s)
- Manali Chandnani
- Department of Biological Sciences, P D Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Dist. Anand, Changa, Gujarat, 388 421, India
| | - Disha Patel
- Department of Biological Sciences, P D Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Dist. Anand, Changa, Gujarat, 388 421, India
| | - Twinkle Patel
- Department of Biological Sciences, P D Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Dist. Anand, Changa, Gujarat, 388 421, India
| | - Aditi Buch
- Department of Biological Sciences, P D Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Dist. Anand, Changa, Gujarat, 388 421, India.
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2
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Mukhopadhyay A, Karu K, Dalby PA. Two-substrate enzyme engineering using small libraries that combine the substrate preferences from two different variant lineages. Sci Rep 2024; 14:1287. [PMID: 38218974 PMCID: PMC10787763 DOI: 10.1038/s41598-024-51831-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Accepted: 01/09/2024] [Indexed: 01/15/2024] Open
Abstract
Improving the range of substrates accepted by enzymes with high catalytic activity remains an important goal for the industrialisation of biocatalysis. Many enzymes catalyse two-substrate reactions which increases the complexity in engineering them for the synthesis of alternative products. Often mutations are found independently that can improve the acceptance of alternatives to each of the two substrates. Ideally, we would be able to combine mutations identified for each of the two alternative substrates, and so reprogramme new enzyme variants that synthesise specific products from their respective two-substrate combinations. However, as we have previously observed for E. coli transketolase, the mutations that improved activity towards aromatic acceptor aldehydes, did not successfully recombine with mutations that switched the donor substrate to pyruvate. This likely results from several active site residues having multiple roles that can affect both of the substrates, as well as structural interactions between the mutations themselves. Here, we have designed small libraries, including both natural and non-natural amino acids, based on the previous mutational sites that impact on acceptance of the two substrates, to achieve up to 630× increases in kcat for the reaction with 3-formylbenzoic acid (3-FBA) and pyruvate. Computational docking was able to determine how the mutations shaped the active site to improve the proximity of the 3-FBA substrate relative to the enamine-TPP intermediate, formed after the initial reaction with pyruvate. This work opens the way for small libraries to rapidly reprogramme enzyme active sites in a plug and play approach to catalyse new combinations of two-substrate reactions.
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Affiliation(s)
- Arka Mukhopadhyay
- Department of Biochemical Engineering, UCL, Bernard Katz Building, Gower Street, London, WC1E 6BT, UK
| | - Kersti Karu
- Department of Chemistry, UCL, 20 Gordon Street, London, WC1H 0AJ, UK
| | - Paul A Dalby
- Department of Biochemical Engineering, UCL, Bernard Katz Building, Gower Street, London, WC1E 6BT, UK.
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3
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Structural and biochemical characterizations of Thermus thermophilus HB8 transketolase producing a heptulose. Appl Microbiol Biotechnol 2022; 107:233-245. [DOI: 10.1007/s00253-022-12297-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Revised: 10/28/2022] [Accepted: 11/16/2022] [Indexed: 11/29/2022]
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4
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Rath P, Rapp J, Brilisauer K, Braun M, Kolukisaoglu Ü, Forchhammer K, Grond S. Hybrid Chemoenzymatic Synthesis of C7-Sugars for Molecular Evidence of in vivo Shikimate Pathway Inhibition. Chembiochem 2022; 23:e202200241. [PMID: 35508894 PMCID: PMC9401589 DOI: 10.1002/cbic.202200241] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Indexed: 11/22/2022]
Abstract
The design of distinctive chemical synthesis strategies aims for the most efficient routes towards versatile compounds in drug target studies. Here, we establish a powerful hybrid synthetic approach of total chemical and chemoenzymatic synthesis to efficiently obtain various 7‐deoxy‐sedoheptulose (7dSh, 1) analogues, unique C7 sugars, for structure‐activity relationship studies. 7dSh (1) is a rare microbial sugar with in planta herbicidal activity. As natural antimetabolite of 3‐dehydroquinate synthase (DHQS), 7dSh (1) inhibits the shikimate pathway, which is essential for the synthesis of aromatic amino acids in bacteria, fungi, and plants, but absent in mammals. As glyphosate, the most used chemical herbicide faces restrictions worldwide, DHQS has gained more attention as valid target of herbicides and antimicrobial agents. In vitro and in vivo analyses of the C7‐deoxysugars confirm DHQS as enzymatic target, highlight the crucial role of uptake for inhibition and add molecular aspects to target mechanism studies of C7‐sugars as our contribution to global efforts for alternative weed‐control strategies.
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Affiliation(s)
- Pascal Rath
- Eberhard Karls Universitat Tubingen, Institute of Organic Chemistry, Biomolecluar Chemistry, Auf der Morgenstelle 18, 72076, Tuebingen, GERMANY
| | - Johanna Rapp
- Eberhard Karls Universitat Tubingen, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Auf der Morgenstelle 28, 72076, Tuebingen, GERMANY
| | - Klaus Brilisauer
- Eberhard Karls Universitat Tubingen, Institute of Organic Chemistry, Biomolecular Chemistry, Auf der Morgenstelle 18, 72076, Tuebingen, GERMANY
| | - Marvin Braun
- Eberhard Karls Universitat Tubingen, Center for Plant Molecular Biology (ZMBP), Auf der Morgenstelle 32, 72076, Tuebingen, GERMANY
| | - Üner Kolukisaoglu
- Eberhard Karls Universitat Tubingen, Center for Plant Molecular Biology (ZMBP), Auf der Morgenstelle 32, 72076, Tuebingen, GERMANY
| | - Karl Forchhammer
- Eberhard Karls Universitat Tubingen, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Auf der Morgenstelle 28, 72076, Tuebingen, GERMANY
| | - Stephanie Grond
- Eberhard Karls Universität Tübingen Mathematisch-Naturwissenschaftliche Fakultät: Eberhard Karls Universitat Tubingen Mathematisch-Naturwissenschaftliche Fakultat, Institute of Organic Chemistry, Auf der Morgenstelle 18, 72076, Tübingen, GERMANY
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5
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Casajus H, Lagarde A, Nauton L, Ocal N, Leremboure M, Fessner WD, Duguet N, Charmantray F, Hecquet L. Cleavage of Aliphatic α-Hydroxy Ketones by Evolved Transketolase from Geobacillus stearothermophilus. ACS Catal 2022. [DOI: 10.1021/acscatal.1c05140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Hubert Casajus
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Aurélie Lagarde
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Lionel Nauton
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Nazim Ocal
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Martin Leremboure
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Wolf-Dieter Fessner
- Institut für Organische Chemie und Biochemie, Technische Universität Darmstadt, Alarich-Weiss-Strasse 4, 64287 Darmstadt, Germany
| | - Nicolas Duguet
- Univ Lyon, Université Claude-Bernard Lyon 1, CNRS, INSA-Lyon, CPE-Lyon, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS), F-69100 Villeurbanne, France
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, Clermont INP, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
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6
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Morris P, García-Arrazola R, Rios-Solis L, Dalby PA. Biophysical characterization of the inactivation of E. coli transketolase by aqueous co-solvents. Sci Rep 2021; 11:23584. [PMID: 34880340 PMCID: PMC8654844 DOI: 10.1038/s41598-021-03001-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2021] [Accepted: 11/24/2021] [Indexed: 11/09/2022] Open
Abstract
Transketolase (TK) has been previously engineered, using semi-rational directed evolution and substrate walking, to accept increasingly aliphatic, cyclic, and then aromatic substrates. This has ultimately led to the poor water solubility of new substrates, as a potential bottleneck to further exploitation of this enzyme in biocatalysis. Here we used a range of biophysical studies to characterise the response of both E. coli apo- and holo-TK activity and structure to a range of polar organic co-solvents: acetonitrile (AcCN), n-butanol (nBuOH), ethyl acetate (EtOAc), isopropanol (iPrOH), and tetrahydrofuran (THF). The mechanism of enzyme deactivation was found to be predominantly via solvent-induced local unfolding. Holo-TK is thermodynamically more stable than apo-TK and yet for four of the five co-solvents it retained less activity than apo-TK after exposure to organic solvents, indicating that solvent tolerance was not simply correlated to global conformational stability. The co-solvent concentrations required for complete enzyme inactivation was inversely proportional to co-solvent log(P), while the unfolding rate was directly proportional, indicating that the solvents interact with and partially unfold the enzyme through hydrophobic contacts. Small amounts of aggregate formed in some cases, but this was not sufficient to explain the enzyme inactivation. TK was found to be tolerant to 15% (v/v) iPrOH, 10% (v/v) AcCN, or 6% (v/v) nBuOH over 3 h. This work indicates that future attempts to engineer the enzyme to better tolerate co-solvents should focus on increasing the stability of the protein to local unfolding, particularly in and around the cofactor-binding loops.
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Affiliation(s)
- Phattaraporn Morris
- Department of Biochemical Engineering, University College London, Bernard Katz Building, Gower Street, London, WC1E 6BT, UK
- Chemical Metrology and Biometry Department, National Institute of Metrology, 3/4-5 Moo 3, Klong 5, Klong Luang, 12120, Pathumthani, Thailand
| | - Ribia García-Arrazola
- Department of Biochemical Engineering, University College London, Bernard Katz Building, Gower Street, London, WC1E 6BT, UK
| | - Leonardo Rios-Solis
- Institute for Bioengineering, School of Engineering, University of Edinburgh, Edinburgh, EH9 3JL, UK
- Centre for Synthetic and Systems Biology (SynthSys), University of Edinburgh, King's Buildings, Edinburgh, EH9 3JL, UK
| | - Paul A Dalby
- Department of Biochemical Engineering, University College London, Bernard Katz Building, Gower Street, London, WC1E 6BT, UK.
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7
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Cárdenas-Fernández M, Subrizi F, Dobrijevic D, Hailes HC, Ward JM. Characterisation of a hyperthermophilic transketolase from Thermotoga maritima DSM3109 as a biocatalyst for 7-keto-octuronic acid synthesis. Org Biomol Chem 2021; 19:6493-6500. [PMID: 34250527 PMCID: PMC8317047 DOI: 10.1039/d1ob01237a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 07/05/2021] [Indexed: 11/21/2022]
Abstract
Transketolase (TK) is a fundamentally important enzyme in industrial biocatalysis which carries out a stereospecific carbon-carbon bond formation, and is widely used in the synthesis of prochiral ketones. This study describes the biochemical and molecular characterisation of a novel and unusual hyperthermophilic TK from Thermotoga maritima DSM3109 (TKtmar). TKtmar has a low protein sequence homology compared to the already described TKs, with key amino acid residues in the active site highly conserved. TKtmar has a very high optimum temperature (>90 °C) and shows pronounced stability at high temperature (e.g. t1/2 99 and 9.3 h at 50 and 80 °C, respectively) and in presence of organic solvents commonly used in industry (DMSO, acetonitrile and methanol). Substrate screening showed activity towards several monosaccharides and aliphatic aldehydes. In addition, for the first time, TK specificity towards uronic acids was achieved with TKtmar catalysing the efficient conversion of d-galacturonic acid and lithium hydroxypyruvate into 7-keto-octuronic acid, a very rare C8 uronic acid, in high yields (98%, 49 mM).
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Affiliation(s)
- Max Cárdenas-Fernández
- Department of Biochemical Engineering, University College London, Gower Street, London WC1E 6BT, UK. and School of Biosciences, University of Kent, Canterbury, Kent CT2 7NJ, UK
| | - Fabiana Subrizi
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | - Dragana Dobrijevic
- Department of Biochemical Engineering, University College London, Gower Street, London WC1E 6BT, UK.
| | - Helen C Hailes
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | - John M Ward
- Department of Biochemical Engineering, University College London, Gower Street, London WC1E 6BT, UK.
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8
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Ocal N, Lagarde A, L'enfant M, Charmantray F, Hecquet L. High-Throughput Solid-Phase Assay for Substrate Profiling and Directed Evolution of Transketolase. Chembiochem 2021; 22:2814-2820. [PMID: 34289225 DOI: 10.1002/cbic.202100356] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Indexed: 11/10/2022]
Abstract
Thiamine diphosphate-dependent enzymes, and specifically transketolases, form one of the most important families of biocatalytic tools for enantioselective carbon-carbon bond formation yielding various hydroxyketones of biological interest. To enable substrate profiling of transketolases for acceptance of different donors and acceptors, a simple, direct colorimetric assay based on pH reaction variation was developed to establish a high-throughput solid-phase assay. This assay reduces the screening effort in the directed evolution of transketolases, as only active variants are selected for further analysis. Transketolase activity is detected as bicarbonate anions released from the α-ketoacid donor substrate, which causes the pH to rise. A pH indicator, bromothymol blue, which changes color from yellow to blue in alkaline conditions, was used to directly detect, with the naked eye, clones expressing active transketolase variants, obviating enzyme extraction.
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Affiliation(s)
- Nazim Ocal
- Université Clermont Auvergne, CNRS, Auvergne Clermont INP, ICCF, 63000, Clermont-Ferrand, France
| | - Aurélie Lagarde
- Université Clermont Auvergne, CNRS, Auvergne Clermont INP, ICCF, 63000, Clermont-Ferrand, France
| | - Mélanie L'enfant
- Université Clermont Auvergne, CNRS, Auvergne Clermont INP, ICCF, 63000, Clermont-Ferrand, France
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, Auvergne Clermont INP, ICCF, 63000, Clermont-Ferrand, France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, Auvergne Clermont INP, ICCF, 63000, Clermont-Ferrand, France
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9
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Nauton L, Hecquet L, Théry V. QM/MM Study of Human Transketolase: Thiamine Diphosphate Activation Mechanism and Complete Catalytic Cycle. J Chem Inf Model 2021; 61:3502-3515. [PMID: 34161071 DOI: 10.1021/acs.jcim.1c00190] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A computational model for human transketolase was proposed, showing that thiamine diphosphate activation was based on His110 in place of His481 reported in yeast transketolase. In addition, a complete catalytic reaction pathway was investigated using d-xylulose-5-phosphate and d-ribose-5-phosphate as substrates, showing at every step a perfect superimposition of our model with high-resolution crystallographic structures 3MOS, 4KXV, and 4KXX. This study shows that H2N4' of the active thiamine diphosphate "V form" no longer has a self-activating role but allows self-stabilization of the cofactor and of the Breslow intermediate. These advances in our knowledge of the human transketolase mechanism offer interesting prospects for the design of new drugs, this enzyme being involved in several diseases, and for a better understanding of the reactions catalyzed by transketolases from other sources.
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Affiliation(s)
- Lionel Nauton
- Université Clermont Auvergne, CNRS, Clermont Auvergne INP, ICCF, F-63000 Clermont-Ferrand, France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, Clermont Auvergne INP, ICCF, F-63000 Clermont-Ferrand, France
| | - Vincent Théry
- Université Clermont Auvergne, CNRS, Clermont Auvergne INP, ICCF, F-63000 Clermont-Ferrand, France
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10
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Liu M, Wei D, Wen Z, Wang JB. Progress in Stereoselective Construction of C-C Bonds Enabled by Aldolases and Hydroxynitrile Lyases. Front Bioeng Biotechnol 2021; 9:653682. [PMID: 33968915 PMCID: PMC8097096 DOI: 10.3389/fbioe.2021.653682] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2021] [Accepted: 03/25/2021] [Indexed: 11/13/2022] Open
Abstract
The creation of C-C bonds is an effective strategy for constructing complex compounds from simple synthetic blocks. Although many methods have been developed for C-C bond construction, the stereoselective creation of new C-C bonds remains a challenge. The selectivities (enantioselectivity, regioselectivity, and chemoselectivity) of biocatalysts are higher than those of chemical catalysts, therefore biocatalysts are excellent candidates for use in stereoselective C-C bond formation. Here, we summarize progress made in the past 10 years in stereoselective C-C bond formation enabled by two classic types of enzyme, aldolases and hydroxynitrile lyases. The information in this review will enable the development of new routes to the stereoselective construction of C-C bonds.
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Affiliation(s)
- Mi Liu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China.,Key Laboratory of Phytochemistry R&D of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China
| | - Dan Wei
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China.,Key Laboratory of Phytochemistry R&D of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China
| | - Zexing Wen
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China.,Key Laboratory of Phytochemistry R&D of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China
| | - Jian-Bo Wang
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China.,Key Laboratory of Phytochemistry R&D of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, China
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11
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Casajus H, Lagarde A, Leremboure M, De Dios Miguel T, Nauton L, Thery V, Fessner W, Duguet N, Charmantray F, Hecquet L. Enzymatic Synthesis of Aliphatic Acyloins Catalyzed by Thermostable Transketolase. ChemCatChem 2020. [DOI: 10.1002/cctc.202001160] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Hubert Casajus
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Aurélie Lagarde
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Martin Leremboure
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Thomas De Dios Miguel
- Univ Lyon, Université Claude Bernard Lyon 1 CNRS, INSA-Lyon, CPE-Lyon, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS) F-69100 Villeurbanne France
| | - Lionel Nauton
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Vincent Thery
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Wolf‐Dieter Fessner
- Institut für Organische Chemie und Biochemie Technische Universität Darmstadt 64287 Darmstadt Germany
| | - Nicolas Duguet
- Univ Lyon, Université Claude Bernard Lyon 1 CNRS, INSA-Lyon, CPE-Lyon, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS) F-69100 Villeurbanne France
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, SIGMA Clermont Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
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12
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Ocal N, L’enfant M, Charmantray F, Pollegioni L, Martin J, Auffray P, Collin J, Hecquet L. d-Serine as a Key Building Block: Enzymatic Process Development and Smart Applications within the Cascade Enzymatic Concept. Org Process Res Dev 2020. [DOI: 10.1021/acs.oprd.0c00024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Nazim Ocal
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Mélanie L’enfant
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Loredano Pollegioni
- Department of Biotechnology and Life Sciences, Università degli Studi dell’Insubria, 21100 Varese, Italy
| | - Juliette Martin
- Protéus by Seqens, 70 Allée Graham Belln, F-30035 Nîmes, France
| | - Pascal Auffray
- Protéus by Seqens, 70 Allée Graham Belln, F-30035 Nîmes, France
| | - Jérôme Collin
- Protéus by Seqens, 70 Allée Graham Belln, F-30035 Nîmes, France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
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13
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Lorillière M, Guérard‐Hélaine C, Gefflaut T, Fessner W, Clapés P, Charmantray F, Hecquet L. Convergent
in situ
Generation of Both Transketolase Substrates
via
Transaminase and Aldolase Reactions for Sequential One‐Pot, Three‐Step Cascade Synthesis of Ketoses. ChemCatChem 2019. [DOI: 10.1002/cctc.201901756] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Marion Lorillière
- Université Clermont Auvergne, CNRS, SIGMA ClermontInstitut de Chimie de Clermont-Ferrand (ICCF) Clermont-Ferrand F63000 France
| | - Christine Guérard‐Hélaine
- Université Clermont Auvergne, CNRS, SIGMA ClermontInstitut de Chimie de Clermont-Ferrand (ICCF) Clermont-Ferrand F63000 France
| | - Thierry Gefflaut
- Université Clermont Auvergne, CNRS, SIGMA ClermontInstitut de Chimie de Clermont-Ferrand (ICCF) Clermont-Ferrand F63000 France
| | - Wolf‐Dieter Fessner
- Institut für Organische Chemie und BiochemieTechnische Universität Darmstadt Darmstadt 64287 Germany
| | - Pere Clapés
- Biotransformation and Bioactive Molecules GroupInstituto de Química Avanzada de Cataluña IQAC-CSIC Jordi Barcelona 08034 Spain
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, SIGMA ClermontInstitut de Chimie de Clermont-Ferrand (ICCF) Clermont-Ferrand F63000 France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, SIGMA ClermontInstitut de Chimie de Clermont-Ferrand (ICCF) Clermont-Ferrand F63000 France
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14
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Yu H, Hernández López RI, Steadman D, Méndez‐Sánchez D, Higson S, Cázares‐Körner A, Sheppard TD, Ward JM, Hailes HC, Dalby PA. Engineering transketolase to accept both unnatural donor and acceptor substrates and produce α‐hydroxyketones. FEBS J 2019; 287:1758-1776. [DOI: 10.1111/febs.15108] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2019] [Revised: 09/26/2019] [Accepted: 10/23/2019] [Indexed: 11/27/2022]
Affiliation(s)
- Haoran Yu
- Department of Biochemical Engineering University College London UK
| | | | | | | | - Sally Higson
- Department of Chemistry University College London UK
| | | | | | - John M. Ward
- Department of Biochemical Engineering University College London UK
| | | | - Paul A. Dalby
- Department of Biochemical Engineering University College London UK
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15
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Prejanò M, Medina FE, Fernandes PA, Russo N, Ramos MJ, Marino T. The Catalytic Mechanism of Human Transketolase. Chemphyschem 2019; 20:2881-2886. [PMID: 31489766 DOI: 10.1002/cphc.201900650] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Revised: 08/29/2019] [Indexed: 01/10/2023]
Abstract
We have computationally determined the catalytic mechanism of human transketolase (hTK) using a cluster model approach and density functional theory calculations. We were able to determine all the relevant structures, bringing solid evidences to the proposed experimental mechanism, and to add important detail to the structure of the transition states and the energy profile associated with catalysis. Furthermore, we have established the existence of a crucial intermediate of the catalytic cycle, in agreement with experiments. The calculated data brought new insights to hTK's catalytic mechanism, providing free-energy values for the chemical reaction, as well as adding atomistic detail to the experimental mechanism.
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Affiliation(s)
- Mario Prejanò
- Dipartimento di Chimica e Tecnologie Chimiche, Università della Calabria, Via Ponte Pietro Bucci, 87036, Arcavacata di Rende (CS), Italy
| | - Fabiola Estefany Medina
- UCIBIO, REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007, Porto, Portugal
| | - Pedro Alexandrino Fernandes
- UCIBIO, REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007, Porto, Portugal
| | - Nino Russo
- Dipartimento di Chimica e Tecnologie Chimiche, Università della Calabria, Via Ponte Pietro Bucci, 87036, Arcavacata di Rende (CS), Italy
| | - Maria Joao Ramos
- UCIBIO, REQUIMTE, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Rua do Campo Alegre s/n, 4169-007, Porto, Portugal
| | - Tiziana Marino
- Dipartimento di Chimica e Tecnologie Chimiche, Università della Calabria, Via Ponte Pietro Bucci, 87036, Arcavacata di Rende (CS), Italy
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16
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Germer P, Gauchenova E, Walter L, Müller M. Thiamine Diphosphate Dependent KdcA‐Catalysed Formyl Elongation of Aldehydes. ChemCatChem 2019. [DOI: 10.1002/cctc.201900712] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Philipp Germer
- Institut für Pharmazeutische WissenschaftenAlbert-Ludwigs-Universität Freiburg Albertstrasse 25 Freiburg 79104 Germany
| | - Ekaterina Gauchenova
- Institut für Pharmazeutische WissenschaftenAlbert-Ludwigs-Universität Freiburg Albertstrasse 25 Freiburg 79104 Germany
| | - Lydia Walter
- Institut für Pharmazeutische WissenschaftenAlbert-Ludwigs-Universität Freiburg Albertstrasse 25 Freiburg 79104 Germany
| | - Michael Müller
- Institut für Pharmazeutische WissenschaftenAlbert-Ludwigs-Universität Freiburg Albertstrasse 25 Freiburg 79104 Germany
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17
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Wei Z, Wilkinson RC, Rashid GMM, Brown D, Fülöp V, Bugg TDH. Characterization of Thiamine Diphosphate-Dependent 4-Hydroxybenzoylformate Decarboxylase Enzymes from Rhodococcus jostii RHA1 and Pseudomonas fluorescens Pf-5 Involved in Degradation of Aryl C 2 Lignin Degradation Fragments. Biochemistry 2019; 58:5281-5293. [PMID: 30946572 DOI: 10.1021/acs.biochem.9b00177] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A thiamine diphosphate-dependent enzyme annotated as a benzoylformate decarboxylase is encoded by gene cluster ro02984-ro02986 in Rhodococcus jostii RHA1 previously shown to generate vanillin and 4-hydroxybenzaldehyde from lignin oxidation, and a closely related gene cluster is also found in the genome of Pseudomonas fluorescens Pf-5. Two hypotheses for possible pathways involving a thiamine diphosphate-dependent cleavage, either C-C cleavage of a ketol or diketone aryl C3 substrate or decarboxylation of an aryl C2 substrate, were investigated by expression and purification of the recombinant enzymes and expression of dehydrogenase and oxidase enzymes also found in the gene clusters. The ThDP-dependent enzymes showed no activity for cleavage of aryl C3 ketol or diketone substrates but showed activity for decarboxylation of benzoylformate and 4-hydroxybenzoylformate. A flavin-dependent oxidase encoded by gene ro02984 was found to oxidize either mandelic acid or phenylglyoxal. The crystal structure of the P. fluorescens decarboxylase enzyme was determined at 1.69 Å resolution, showing similarity to structures of known benzoylformate decarboxylase enzymes. The P. fluorescens decarboxylase enzyme showed enhanced carboligase activity between vanillin and acetaldehyde, rationalized by the presence of alanine versus serine at residue 73 in the enzyme active site, which was investigated further by site-directed mutagenesis of this residue. A hypothesis for a pathway for degradation of aryl C2 fragments arising from oxidative cleavage of phenylcoumaran and diarylpropane structures in lignin is proposed.
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Affiliation(s)
- Zhen Wei
- Department of Chemistry , University of Warwick , Coventry CV4 7AL , U.K
| | | | - Goran M M Rashid
- Department of Chemistry , University of Warwick , Coventry CV4 7AL , U.K
| | - David Brown
- Department of Chemistry , University of Warwick , Coventry CV4 7AL , U.K
| | - Vilmos Fülöp
- School of Life Sciences , University of Warwick , Coventry CV4 7AL , U.K
| | - Timothy D H Bugg
- Department of Chemistry , University of Warwick , Coventry CV4 7AL , U.K
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18
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Lorillière M, Dumoulin R, L’enfant M, Rambourdin A, Thery V, Nauton L, Fessner WD, Charmantray F, Hecquet L. Evolved Thermostable Transketolase for Stereoselective Two-Carbon Elongation of Non-Phosphorylated Aldoses to Naturally Rare Ketoses. ACS Catal 2019. [DOI: 10.1021/acscatal.9b01339] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Marion Lorillière
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Romain Dumoulin
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Mélanie L’enfant
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Agnès Rambourdin
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Vincent Thery
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Lionel Nauton
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Wolf-Dieter Fessner
- Institut für Organische Chemie und Biochemie, Technische Universität Darmstadt, Alarich-Weiss-Strasse 4, 64287 Darmstadt, Germany
| | - Franck Charmantray
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
| | - Laurence Hecquet
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-63000 Clermont-Ferrand, France
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19
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L'enfant M, Bruna F, Lorillière M, Ocal N, Fessner W, Pollegioni L, Charmantray F, Hecquet L. One‐Pot Cascade Synthesis of (3 S)‐Hydroxyketones Catalyzed by Transketolase viaHydroxypyruvate Generated in Situfrom d‐Serine by d‐Amino Acid Oxidase. Adv Synth Catal 2019. [DOI: 10.1002/adsc.201900109] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Mélanie L'enfant
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Felipe Bruna
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Marion Lorillière
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Nazim Ocal
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Wolf‐Dieter Fessner
- Institut für Organische Chemie und BiochemieTechnische Universität Darmstadt 64287 Darmstadt Germany
| | - Loredano Pollegioni
- Department of Biotechnology and Life SciencesUniversità degli Studi dell'Insubria Varese Italy
| | - Franck Charmantray
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
| | - Laurence Hecquet
- Université Clermont AuvergneCNRSSIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF) F-63000 Clermont-Ferrand France
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20
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Brilisauer K, Rapp J, Rath P, Schöllhorn A, Bleul L, Weiß E, Stahl M, Grond S, Forchhammer K. Cyanobacterial antimetabolite 7-deoxy-sedoheptulose blocks the shikimate pathway to inhibit the growth of prototrophic organisms. Nat Commun 2019; 10:545. [PMID: 30710081 PMCID: PMC6358636 DOI: 10.1038/s41467-019-08476-8] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2018] [Accepted: 01/09/2019] [Indexed: 11/17/2022] Open
Abstract
Antimetabolites are small molecules that inhibit enzymes by mimicking physiological substrates. We report the discovery and structural elucidation of the antimetabolite 7-deoxy-sedoheptulose (7dSh). This unusual sugar inhibits the growth of various prototrophic organisms, including species of cyanobacteria, Saccharomyces, and Arabidopsis. We isolate bioactive 7dSh from culture supernatants of the cyanobacterium Synechococcus elongatus. A chemoenzymatic synthesis of 7dSh using S. elongatus transketolase as catalyst and 5-deoxy-d-ribose as substrate allows antimicrobial and herbicidal bioprofiling. Organisms treated with 7dSh accumulate 3-deoxy-d-arabino-heptulosonate 7-phosphate, which indicates that the molecular target is 3-dehydroquinate synthase, a key enzyme of the shikimate pathway, which is absent in humans and animals. The herbicidal activity of 7dSh is in the low micromolar range. No cytotoxic effects on mammalian cells have been observed. We propose that the in vivo inhibition of the shikimate pathway makes 7dSh a natural antimicrobial and herbicidal agent. Mother Nature is a valuable resource for the discovery of drug and agricultural chemicals. Here, the authors show that 7-deoxy-sedoheptulose produced by a cyanobacterium is an antimicrobial and herbicidal compound that acts through inhibition of 3-dehydroquniate synthase in the shikimate pathway.
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Affiliation(s)
- Klaus Brilisauer
- Institute of Organic Chemistry, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 18, 72076, Tübingen, Germany.,Microbiology, Organismic Interactions, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany
| | - Johanna Rapp
- Microbiology, Organismic Interactions, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany
| | - Pascal Rath
- Institute of Organic Chemistry, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 18, 72076, Tübingen, Germany
| | - Anna Schöllhorn
- Microbiology, Organismic Interactions, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany
| | - Lisa Bleul
- Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Eberhard Karls Universität Tübingen, Eugenstraße 6, 72076, Tübingen, Germany
| | - Elisabeth Weiß
- Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Eberhard Karls Universität Tübingen, Eugenstraße 6, 72076, Tübingen, Germany
| | - Mark Stahl
- Center for Plant Molecular Biology, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 32, 72076, Tübingen, Germany
| | - Stephanie Grond
- Institute of Organic Chemistry, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 18, 72076, Tübingen, Germany.
| | - Karl Forchhammer
- Microbiology, Organismic Interactions, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 28, 72076, Tübingen, Germany.
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21
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Hsu N, Wang Y, Lin K, Chang C, Ke S, Lyu S, Hsu L, Li Y, Chen S, Wang K, Li T. Evidence of Diradicals Involved in the Yeast Transketolase Catalyzed Keto-Transferring Reactions. Chembiochem 2018; 19:2395-2402. [PMID: 30155962 PMCID: PMC6282555 DOI: 10.1002/cbic.201800378] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2018] [Indexed: 11/12/2022]
Abstract
Transketolase (TK) catalyzes a reversible transfer of a two-carbon (C2 ) unit between phosphoketose donors and phosphoaldose acceptors, for which the group-transfer reaction that follows a one- or two-electron mechanism and the force that breaks the C2"-C3" bond of the ketose donors remain unresolved. Herein, we report ultrahigh-resolution crystal structures of a TK (TKps) from Pichia stipitis in previously undiscovered intermediate states and support a diradical mechanism for a reversible group-transfer reaction. In conjunction with MS, NMR spectroscopy, EPR and computational analyses, it is concluded that the enzyme-catalyzed non-Kekulé diradical cofactor brings about the C2"-C3" bond cleavage/formation for the C2 -unit transfer reaction, for which suppression of activation energy and activation and destabilization of enzymatic intermediates are facilitated.
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Affiliation(s)
- Ning‐Shian Hsu
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
- Institute of Biochemistry and Molecular BiologyNational Yang-Ming UniversityTaipei112Taiwan
| | - Yung‐Lin Wang
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
| | - Kuan‐Hung Lin
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
- Institute of Biochemistry and Molecular BiologyNational Yang-Ming UniversityTaipei112Taiwan
| | - Chi‐Fon Chang
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
| | - Shyue‐Chu Ke
- Department of PhysicsNational Dong Hwa UniversityHualien974Taiwan
| | - Syue‐Yi Lyu
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
| | - Li‐Jen Hsu
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
| | - Yi‐Shan Li
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
| | | | | | - Tsung‐Lin Li
- Genomics Research CenterAcademia SinicaTaipei115Taiwan
- Biotechnology CenterNational Chung Hsing UniversityTaichung City402Taiwan
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22
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Yan J, Sun R, Shi K, Li K, Yang L, Zhong G. N-Heterocyclic Carbene-Catalyzed Asymmetric Benzoin Reaction in Water. J Org Chem 2018; 83:7547-7552. [DOI: 10.1021/acs.joc.8b00481] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Jun Yan
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
| | - Rong Sun
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
| | - Kuangxi Shi
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
| | - Kai Li
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
| | - Limin Yang
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
| | - Guofu Zhong
- College of Materials, Chemistry & Chemical Engineering, Hangzhou Normal University, Hangzhou 310036, China
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23
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Vu ND, Bah S, Deruer E, Duguet N, Lemaire M. Robust Organocatalysts for the Cleavage of Vegetable Oil Derivatives to Aldehydes through Retrobenzoin Condensation. Chemistry 2018; 24:8141-8150. [DOI: 10.1002/chem.201800091] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2018] [Indexed: 11/08/2022]
Affiliation(s)
- Nam Duc Vu
- Univ Lyon, Université Claude Bernard Lyon1; CNRS, INSA; CPE-Lyon; Institut de Chimie et Biochimie Moléculaires et, Supramoléculaires; ICBMS; UMR 5246; Equipe CAtalyse, SYnthèse et ENvironnement (CASYEN); 43, bd du 11 novembre 1918 69622 Villeurbanne cedex France
| | - Souleymane Bah
- Univ Lyon, Université Claude Bernard Lyon1; CNRS, INSA; CPE-Lyon; Institut de Chimie et Biochimie Moléculaires et, Supramoléculaires; ICBMS; UMR 5246; Equipe CAtalyse, SYnthèse et ENvironnement (CASYEN); 43, bd du 11 novembre 1918 69622 Villeurbanne cedex France
| | - Elsa Deruer
- Univ Lyon, Université Claude Bernard Lyon1; CNRS, INSA; CPE-Lyon; Institut de Chimie et Biochimie Moléculaires et, Supramoléculaires; ICBMS; UMR 5246; Equipe CAtalyse, SYnthèse et ENvironnement (CASYEN); 43, bd du 11 novembre 1918 69622 Villeurbanne cedex France
| | - Nicolas Duguet
- Univ Lyon, Université Claude Bernard Lyon1; CNRS, INSA; CPE-Lyon; Institut de Chimie et Biochimie Moléculaires et, Supramoléculaires; ICBMS; UMR 5246; Equipe CAtalyse, SYnthèse et ENvironnement (CASYEN); 43, bd du 11 novembre 1918 69622 Villeurbanne cedex France
| | - Marc Lemaire
- Univ Lyon, Université Claude Bernard Lyon1; CNRS, INSA; CPE-Lyon; Institut de Chimie et Biochimie Moléculaires et, Supramoléculaires; ICBMS; UMR 5246; Equipe CAtalyse, SYnthèse et ENvironnement (CASYEN); 43, bd du 11 novembre 1918 69622 Villeurbanne cedex France
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24
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Recent Advances in the Synthesis of Spiroheterocycles via N-Heterocyclic Carbene Organocatalysis. Molecules 2017; 22:molecules22111882. [PMID: 29117098 PMCID: PMC6150278 DOI: 10.3390/molecules22111882] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2017] [Accepted: 10/30/2017] [Indexed: 12/01/2022] Open
Abstract
Spiroheterocycles are regarded as a privileged framework because of their wide distribution in various natural products and synthetic molecules and promising bioactivities. This review focuses on the recent advances in the synthesis of spiroheterocycles by using the strategy of N-heterocyclic carbene (NHC) organocatalysis, and is organized based on the stereoselectivity and the reactive intermediates. According to the stereochemistry, this review was divided into two main parts, covering racemic and enantioselective versions. In each part, we firstly describe the synthetic transformations using nucleophilic Breslow intermediates, and then discuss the reactions that employ electrophilic acylazolium or radical cation intermediates. With those distinct catalytic activation modes of NHC organocatlysis, we expect this synthetic protocol will possibly produce new molecules with structural novelty and complexity, which may warrant further research in the field of drug discovery.
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25
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Guérard-Hélaine C, De Sousa Lopes Moreira M, Touisni N, Hecquet L, Lemaire M, Hélaine V. Transketolase-Aldolase Symbiosis for the Stereoselective Preparation of Aldoses and Ketoses of Biological Interest. Adv Synth Catal 2017. [DOI: 10.1002/adsc.201700209] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Christine Guérard-Hélaine
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
| | - Maxime De Sousa Lopes Moreira
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
| | - Nadia Touisni
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
| | - Laurence Hecquet
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
| | - Marielle Lemaire
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
| | - Virgil Hélaine
- Université Clermont Auvergne; CNRS; SIGMA Clermont; Institut de Chimie de Clermont-Ferrand, F-63000; Clermont-Ferrand BP 80026, F- 63171 Aubière France
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26
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Saravanan T, Junker S, Kickstein M, Hein S, Link MK, Ranglack J, Witt S, Lorillière M, Hecquet L, Fessner WD. Donor-Promiskuität einer thermostabilen Transketolase durch gelenkte Evolution - effektive Komplementierung der 1-Desoxy-d
- xylulose-5-phosphat-Synthase-Aktivität. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201701169] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Thangavelu Saravanan
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Sebastian Junker
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Michael Kickstein
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Sascha Hein
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Marie-Kristin Link
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Jan Ranglack
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Samantha Witt
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
| | - Marion Lorillière
- Clermont Université, Université Blaise Pascal; Institut de Chimie de Clermont-Ferrand, CNRS UMR 6296, ICCF; BP10448 63177 Aubière Frankreich
| | - Laurence Hecquet
- Clermont Université, Université Blaise Pascal; Institut de Chimie de Clermont-Ferrand, CNRS UMR 6296, ICCF; BP10448 63177 Aubière Frankreich
| | - Wolf-Dieter Fessner
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Straße 4 64287 Darmstadt Deutschland
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Saravanan T, Junker S, Kickstein M, Hein S, Link MK, Ranglack J, Witt S, Lorillière M, Hecquet L, Fessner WD. Donor Promiscuity of a Thermostable Transketolase by Directed Evolution: Efficient Complementation of 1-Deoxy-d
-xylulose-5-phosphate Synthase Activity. Angew Chem Int Ed Engl 2017; 56:5358-5362. [DOI: 10.1002/anie.201701169] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Indexed: 11/10/2022]
Affiliation(s)
- Thangavelu Saravanan
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Sebastian Junker
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Michael Kickstein
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Sascha Hein
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Marie-Kristin Link
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Jan Ranglack
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Samantha Witt
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Marion Lorillière
- Université Clermont Auvergne; CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-; 63000 Clermont-Ferrand France
| | - Laurence Hecquet
- Université Clermont Auvergne; CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), F-; 63000 Clermont-Ferrand France
| | - Wolf-Dieter Fessner
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
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Zhou C, Saravanan T, Lorillière M, Wei D, Charmantray F, Hecquet L, Fessner WD, Yi D. Second-Generation Engineering of a Thermostable Transketolase (TKGst) for Aliphatic Aldehyde Acceptors with Either Improved or Reversed Stereoselectivity. Chembiochem 2017; 18:455-459. [DOI: 10.1002/cbic.201600609] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2016] [Indexed: 11/07/2022]
Affiliation(s)
- Chaoqiang Zhou
- State Key Laboratory of Bioreactor Engineering; East China University of Science and Technology; Meilong Road 130 200237 Shanghai P.R. China
| | - Thangavelu Saravanan
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Marion Lorillière
- Université Blaise Pascal ou Université Clermont Auvergne; Institut de Chimie de Clermont-Ferrand; B. P. 10448 63000 Clermont-Ferrand France
- CNRS; UMR 6296; ICCF; 63177 Aubière France
| | - Dongzhi Wei
- State Key Laboratory of Bioreactor Engineering; East China University of Science and Technology; Meilong Road 130 200237 Shanghai P.R. China
| | - Franck Charmantray
- Université Blaise Pascal ou Université Clermont Auvergne; Institut de Chimie de Clermont-Ferrand; B. P. 10448 63000 Clermont-Ferrand France
- CNRS; UMR 6296; ICCF; 63177 Aubière France
| | - Laurence Hecquet
- Université Blaise Pascal ou Université Clermont Auvergne; Institut de Chimie de Clermont-Ferrand; B. P. 10448 63000 Clermont-Ferrand France
- CNRS; UMR 6296; ICCF; 63177 Aubière France
| | - Wolf-Dieter Fessner
- Institut für Organische Chemie und Biochemie; Technische Universität Darmstadt; Alarich-Weiss-Strasse 4 64287 Darmstadt Germany
| | - Dong Yi
- State Key Laboratory of Bioreactor Engineering; East China University of Science and Technology; Meilong Road 130 200237 Shanghai P.R. China
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Gómez-Manzo S, Marcial-Quino J, Vanoye-Carlo A, Serrano-Posada H, Ortega-Cuellar D, González-Valdez A, Castillo-Rodríguez RA, Hernández-Ochoa B, Sierra-Palacios E, Rodríguez-Bustamante E, Arreguin-Espinosa R. Glucose-6-Phosphate Dehydrogenase: Update and Analysis of New Mutations around the World. Int J Mol Sci 2016; 17:ijms17122069. [PMID: 27941691 PMCID: PMC5187869 DOI: 10.3390/ijms17122069] [Citation(s) in RCA: 124] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2016] [Revised: 12/03/2016] [Accepted: 12/05/2016] [Indexed: 01/27/2023] Open
Abstract
Glucose-6-phosphate dehydrogenase (G6PD) is a key regulatory enzyme in the pentose phosphate pathway which produces nicotinamide adenine dinucleotide phosphate (NADPH) to maintain an adequate reducing environment in the cells and is especially important in red blood cells (RBC). Given its central role in the regulation of redox state, it is understandable that mutations in the gene encoding G6PD can cause deficiency of the protein activity leading to clinical manifestations such as neonatal jaundice and acute hemolytic anemia. Recently, an extensive review has been published about variants in the g6pd gene; recognizing 186 mutations. In this work, we review the state of the art in G6PD deficiency, describing 217 mutations in the g6pd gene; we also compile information about 31 new mutations, 16 that were not recognized and 15 more that have recently been reported. In order to get a better picture of the effects of new described mutations in g6pd gene, we locate the point mutations in the solved three-dimensional structure of the human G6PD protein. We found that class I mutations have the most deleterious effects on the structure and stability of the protein.
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Affiliation(s)
- Saúl Gómez-Manzo
- Laboratorio de Bioquímica Genética, Instituto Nacional de Pediatría, Secretaría de Salud 04530, Mexico.
| | - Jaime Marcial-Quino
- Consejo Nacional de Ciencia y Tecnología (CONACYT), Instituto Nacional de Pediatría, Secretaría de Salud 04530, Mexico.
| | - America Vanoye-Carlo
- Laboratorio de Neurociencias, Instituto Nacional de Pediatría, Secretaría de Salud 04530, Mexico.
| | - Hugo Serrano-Posada
- Consejo Nacional de Ciencia y Tecnología (CONACYT), Laboratorio de Bioingeniería, Universidad de Colima, Colima 28400, Mexico.
| | - Daniel Ortega-Cuellar
- Laboratorio de Nutrición Experimental, Instituto Nacional de Pediatría, Secretaría de Salud 04530, Mexico.
| | - Abigail González-Valdez
- Departamento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Mexico City 04510, Mexico.
| | | | - Beatriz Hernández-Ochoa
- Laboratorio de Inmunoquímica, Hospital Infantil de México Federico Gómez, Mexico City 06720, Mexico.
| | - Edgar Sierra-Palacios
- Colegio de Ciencias y Humanidades, Plantel Casa Libertad, Universidad Autónoma de la Ciudad de México, Mexico City 09620, Mexico.
| | - Eduardo Rodríguez-Bustamante
- Departamento de Química de Biomacromoléculas, Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior s/n, Ciudad Universitaria, Mexico City 04510, Mexico.
| | - Roberto Arreguin-Espinosa
- Departamento de Química de Biomacromoléculas, Instituto de Química, Universidad Nacional Autónoma de México, Circuito Exterior s/n, Ciudad Universitaria, Mexico City 04510, Mexico.
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Nauton L, Hélaine V, Théry V, Hecquet L. Insights into the Thiamine Diphosphate Enzyme Activation Mechanism: Computational Model for Transketolase Using a Quantum Mechanical/Molecular Mechanical Method. Biochemistry 2016; 55:2144-52. [PMID: 26998737 DOI: 10.1021/acs.biochem.5b00787] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We propose the first computational model for transketolase (TK), a thiamine diphosphate (ThDP)-dependent enzyme, using a quantum mechanical/molecular mechanical method on the basis of crystallographic TK structures from yeast and Escherichia coli, together with experimental kinetic data reported in the literature with wild-type and mutant TK. This model allowed us to define a new route for ThDP activation in the enzyme environment. We evidenced a strong interaction between ThDP and Glu418B of the TK active site, itself stabilized by Glu162A. The crucial point highlighted here is that deprotonation of ThDP C2 is not performed by ThDP N4' as reported in the literature, but by His481B, involving a HOH688A molecule bridge. Thus, ThDP N4' is converted from an amino form to an iminium form, ensuring the stabilization of the C2 carbanion or carbene. Finally, ThDP activation proceeds via an intermolecular process and not by an intramolecular one as reported in the literature. More generally, this proposed ThDP activation mechanism can be applied to some other ThDP-dependent enzymes and used to define the entire TK mechanism with donor and acceptor substrates more accurately.
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Affiliation(s)
- Lionel Nauton
- Université Clermont Auvergne, Université Blaise-Pascal , Institut de Chimie de Clermont-Ferrand, BP 10448, F-63000 Clermont-Ferrand, France.,CNRS , UMR 6296, ICCF, F-63178 Aubiere, France
| | - Virgil Hélaine
- Université Clermont Auvergne, Université Blaise-Pascal , Institut de Chimie de Clermont-Ferrand, BP 10448, F-63000 Clermont-Ferrand, France.,CNRS , UMR 6296, ICCF, F-63178 Aubiere, France
| | - Vincent Théry
- Université Clermont Auvergne, Université Blaise-Pascal , Institut de Chimie de Clermont-Ferrand, BP 10448, F-63000 Clermont-Ferrand, France.,CNRS , UMR 6296, ICCF, F-63178 Aubiere, France
| | - Laurence Hecquet
- Université Clermont Auvergne, Université Blaise-Pascal , Institut de Chimie de Clermont-Ferrand, BP 10448, F-63000 Clermont-Ferrand, France.,CNRS , UMR 6296, ICCF, F-63178 Aubiere, France
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Deruer E, Duguet N, Lemaire M. Thiazolylidene-catalyzed cleavage of methyl oleate-derived α-hydroxy ketone to the corresponding free aldehydes. CHEMSUSCHEM 2015; 8:2481-2486. [PMID: 26120006 DOI: 10.1002/cssc.201500462] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2015] [Indexed: 06/04/2023]
Abstract
The thiazolylidene-catalyzed cleavage of the α-hydroxy ketone derived from methyl oleate gave the corresponding aldehydes under nonoxidative conditions through a retro-benzoin process. The aldehydes produced are in equilibrium with their corresponding acyloins. To illustrate the synthetic utility of this protocol, the aldehydes were recovered by distillation.
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Affiliation(s)
- Elsa Deruer
- Equipe CAtalyse SYnthèse et ENvironnement (CASYEN), Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS), CNRS, UMR-5246, Université Claude Bernard Lyon 1, 43 boulevard du 11 novembre 1918, Bât. Curien/CPE, 69622, Villeurbanne (France)
| | - Nicolas Duguet
- Equipe CAtalyse SYnthèse et ENvironnement (CASYEN), Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS), CNRS, UMR-5246, Université Claude Bernard Lyon 1, 43 boulevard du 11 novembre 1918, Bât. Curien/CPE, 69622, Villeurbanne (France).
| | - Marc Lemaire
- Equipe CAtalyse SYnthèse et ENvironnement (CASYEN), Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (ICBMS), CNRS, UMR-5246, Université Claude Bernard Lyon 1, 43 boulevard du 11 novembre 1918, Bât. Curien/CPE, 69622, Villeurbanne (France).
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32
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Abdoul Zabar J, Lorillière M, Yi D, Saravanan T, Devamani T, Nauton L, Charmantray F, Hélaine V, Fessner WD, Hecquet L. Engineering a Thermostable Transketolase for Unnatural Conversion of (2S
)-Hydroxyaldehydes. Adv Synth Catal 2015. [DOI: 10.1002/adsc.201500207] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Liu T, Han SM, Han LL, Wang L, Cui XY, Du CY, Bi S. Theoretical investigation on the chemoselective N-heterocyclic carbene-catalyzed cross-benzoin reactions. Org Biomol Chem 2015; 13:3654-61. [DOI: 10.1039/c4ob02064b] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A density functional theory study was performed to understand the detailed mechanisms of the cross-benzoin reactions catalyzed by N-heterocyclic carbene (NHC) species.
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Affiliation(s)
- Tao Liu
- Department of Chemistry and Chemical Engineering
- Key Lab of Inorganic Chemistry
- Shandong Provincial Education Department
- Jining University
- Qufu 273155
| | - Shu-Min Han
- School of Chemistry and Chemical Engineering
- Qufu Normal University
- Qufu 273165
- China
| | - Ling-Li Han
- Department of Chemistry and Chemical Engineering
- Key Lab of Inorganic Chemistry
- Shandong Provincial Education Department
- Jining University
- Qufu 273155
| | - Lu Wang
- Department of Chemistry and Chemical Engineering
- Key Lab of Inorganic Chemistry
- Shandong Provincial Education Department
- Jining University
- Qufu 273155
| | - Xiang-Yang Cui
- Department of Chemistry and Chemical Engineering
- Key Lab of Inorganic Chemistry
- Shandong Provincial Education Department
- Jining University
- Qufu 273155
| | - Chong-Yang Du
- Department of Chemistry and Chemical Engineering
- Key Lab of Inorganic Chemistry
- Shandong Provincial Education Department
- Jining University
- Qufu 273155
| | - Siwei Bi
- School of Chemistry and Chemical Engineering
- Qufu Normal University
- Qufu 273165
- China
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Jiang H, Li F, Zhang J, Zhang J, Huang B, Yu Y, Xiang J. Comparison of protein expression profiles of the hepatopancreas in Fenneropenaeus chinensis challenged with heat-inactivated Vibrio anguillarum and white spot syndrome virus. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2014; 16:111-123. [PMID: 24057166 DOI: 10.1007/s10126-013-9538-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2013] [Accepted: 07/15/2013] [Indexed: 06/02/2023]
Abstract
Fenneropenaeus chinensis (Chinese shrimp) culture industry, like other Penaeidae culture, has been seriously affected by the shrimp diseases caused by bacteria and virus. To better understand the mechanism of immune response of shrimp to different pathogens, proteome research approach was utilized in this study. Firstly, the soluble hepatopancreas protein samples in adult Chinese shrimp among control, heat-inactivated Vibrio-challenged and white spot syndrome virus-infected groups were separated by 2-DE (pH range, 4-7; sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and pH range, 3-10; tricine-SDS-PAGE). Then the differentially expressed protein spots (≥1.5-fold or ≤0.67-fold averagely of controls) were analyzed by LC-ESI-MS/MS. Using Mascot online database searching algorithm and SEQUEST searching program, 48 and 49 differentially expressed protein spots were successfully identified in response to Vibrio and white spot syndrome virus infection, respectively. Based on these results, we discussed the mechanism of immune response of the shrimp and shed light on the differences between immune response of shrimp toward Vibrio and white spot syndrome virus. This study also set a basis for further analyses of some key genes in immune response of Chinese shrimp.
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Affiliation(s)
- Hao Jiang
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
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35
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Touisni N, Charmantray F, Helaine V, Forano C, Hecquet L, Mousty C. Optimized immobilization of transketolase from E. coli in MgAl-layered double hydroxides. Colloids Surf B Biointerfaces 2013; 112:452-9. [DOI: 10.1016/j.colsurfb.2013.07.023] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2013] [Accepted: 07/08/2013] [Indexed: 10/26/2022]
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37
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Andrews FH, McLeish MJ. Using site-saturation mutagenesis to explore mechanism and substrate specificity in thiamin diphosphate-dependent enzymes. FEBS J 2013; 280:6395-411. [DOI: 10.1111/febs.12459] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2013] [Revised: 07/23/2013] [Accepted: 07/26/2013] [Indexed: 12/25/2022]
Affiliation(s)
- Forest H. Andrews
- Department of Chemistry and Chemical Biology; Indiana University-Purdue University Indianapolis; IN USA
| | - Michael J. McLeish
- Department of Chemistry and Chemical Biology; Indiana University-Purdue University Indianapolis; IN USA
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38
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39
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Gao C, Wang X, Ma C, Xu P. Production of hydroxypyruvate from glycerate by a novel biotechnological route. BIORESOURCE TECHNOLOGY 2013; 131:552-554. [PMID: 23415941 DOI: 10.1016/j.biortech.2013.01.062] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2012] [Revised: 01/09/2013] [Accepted: 01/10/2013] [Indexed: 06/01/2023]
Abstract
In this work, bio-oxidation of glycerate was introduced for the green production of hydroxypyruvate. Whole cells of Pseudomonas sp. XP-LM were confirmed to have a good ability to produce hydroxypyruvate from glycerate. Under the optimal conditions, Hydroxypyruvate of 98.6 mM was produced from glycerate of 200 mM. Glycerate is now potentially producible from glycerol, a by-product during biodiesel fuel production, through a biotechnological process. Thus, the bioconversion system introduced in this work provided not only a green hydroxypyruvate production process but also a potential pathway of surplus glycerol utilization.
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Affiliation(s)
- Chao Gao
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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40
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41
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Simon G, Eljezi T, Legeret B, Charmantray F, Castillo JA, Guérard-Hélaine C, Lemaire M, Bouzon M, Marlière P, Hélaine V, Hecquet L. Synthesis of Specially Designed Probes to Broaden Transketolase Scope. ChemCatChem 2013. [DOI: 10.1002/cctc.201200479] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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42
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Abdoul-Zabar J, Sorel I, Hélaine V, Charmantray F, Devamani T, Yi D, de Berardinis V, Louis D, Marlière P, Fessner WD, Hecquet L. Thermostable Transketolase fromGeobacillus stearothermophilus:Characterization and Catalytic Properties. Adv Synth Catal 2012. [DOI: 10.1002/adsc.201200590] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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43
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The thiamine-dependent enzyme of the vitamin K biosynthesis catalyzes reductive C-N bond ligation between nitroarenes and α-ketoacids. Sci China Chem 2012. [DOI: 10.1007/s11426-012-4792-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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44
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Yi D, Devamani T, Abdoul-Zabar J, Charmantray F, Helaine V, Hecquet L, Fessner WD. A pH-Based High-Throughput Assay for Transketolase: Fingerprinting of Substrate Tolerance and Quantitative Kinetics. Chembiochem 2012; 13:2290-300. [DOI: 10.1002/cbic.201200364] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2012] [Indexed: 11/05/2022]
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45
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Ranoux A, Arends IW, Hanefeld U. Development of screening methods for transketolase activity and substrate scope. Tetrahedron Lett 2012. [DOI: 10.1016/j.tetlet.2011.12.010] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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Payongsri P, Steadman D, Strafford J, MacMurray A, Hailes HC, Dalby PA. Rational substrate and enzyme engineering of transketolase for aromatics. Org Biomol Chem 2012; 10:9021-9. [DOI: 10.1039/c2ob25751c] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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47
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Strafford J, Payongsri P, Hibbert EG, Morris P, Batth SS, Steadman D, Smith MEB, Ward JM, Hailes HC, Dalby PA. Directed evolution to re-adapt a co-evolved network within an enzyme. J Biotechnol 2011; 157:237-45. [PMID: 22154561 PMCID: PMC3657141 DOI: 10.1016/j.jbiotec.2011.11.017] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2011] [Revised: 11/19/2011] [Accepted: 11/22/2011] [Indexed: 12/04/2022]
Abstract
We have previously used targeted active-site saturation mutagenesis to identify a number of transketolase single mutants that improved activity towards either glycolaldehyde (GA), or the non-natural substrate propionaldehyde (PA). Here, all attempts to recombine the singles into double mutants led to unexpected losses of specific activity towards both substrates. A typical trade-off occurred between soluble expression levels and specific activity for all single mutants, but many double mutants decreased both properties more severely suggesting a critical loss of protein stability or native folding. Statistical coupling analysis (SCA) of a large multiple sequence alignment revealed a network of nine co-evolved residues that affected all but one double mutant. Such networks maintain important functional properties such as activity, specificity, folding, stability, and solubility and may be rapidly disrupted by introducing one or more non-naturally occurring mutations. To identify variants of this network that would accept and improve upon our best D469 mutants for activity towards PA, we created a library of random single, double and triple mutants across seven of the co-evolved residues, combining our D469 variants with only naturally occurring mutations at the remaining sites. A triple mutant cluster at D469, E498 and R520 was found to behave synergistically for the specific activity towards PA. Protein expression was severely reduced by E498D and improved by R520Q, yet variants containing both mutations led to improved specific activity and enzyme expression, but with loss of solubility and the formation of inclusion bodies. D469S and R520Q combined synergistically to improve kcat 20-fold for PA, more than for any previous transketolase mutant. R520Q also doubled the specific activity of the previously identified D469T to create our most active transketolase mutant to date. Our results show that recombining active-site mutants obtained by saturation mutagenesis can rapidly destabilise critical networks of co-evolved residues, whereas beneficial single mutants can be retained and improved upon by randomly recombining them with natural variants at other positions in the network.
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Affiliation(s)
- John Strafford
- Advanced Centre for Biochemical Engineering, Department of Biochemical Engineering, University College London, Torrington Place, London WC1E 7JE, UK
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Benaissi K, Hélaine V, Prévot V, Forano C, Hecquet L. Efficient Immobilization of Yeast Transketolase on Layered Double Hydroxides and Application for Ketose Synthesis. Adv Synth Catal 2011. [DOI: 10.1002/adsc.201000925] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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49
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Brovetto M, Gamenara D, Méndez PS, Seoane GA. C-C bond-forming lyases in organic synthesis. Chem Rev 2011; 111:4346-403. [PMID: 21417217 DOI: 10.1021/cr100299p] [Citation(s) in RCA: 160] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Margarita Brovetto
- Grupo de Fisicoquímica Orgánica y Bioprocesos, Departamento de Química Orgánica, DETEMA, Facultad de Química, Universidad de la República (UdelaR), Gral. Flores 2124, 11800 Montevideo, Uruguay
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Oh SH, Witek RP, Bae SH, Darwiche H, Jung Y, Pi L, Brown A, Petersen BE. Detection of transketolase in bone marrow-derived insulin-producing cells: benfotiamine enhances insulin synthesis and glucose metabolism. Stem Cells Dev 2010; 18:37-46. [PMID: 18393672 DOI: 10.1089/scd.2007.0255] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Adult bone marrow (BM)-derived insulin-producing cells (IPCs) are capable of regulating blood glucose levels in chemically induced hyperglycemic mice. Using cell transplantation therapy, fully functional BM-derived IPCs help to mediate treatment of diabetes mellitus. Here, we demonstrate the detection of the pentose phosphate pathway enzyme, transketolase (TK), in BM-derived IPCs cultured under high-glucose conditions. Benfotiamine, a known activator of TK, was not shown to affect the proliferation of insulinoma cell line, INS-1; however, when INS-1 cells were cultured with oxythiamine, an inhibitor of TK, cell proliferation was suppressed. Treatment with benfotiamine activated glucose metabolism in INS-1 cells in high-glucose culture conditions, and appeared to maximize the BM-derived IPCs ability to synthesize insulin. Benfotiamine was not shown to induce the glucose receptor Glut-2, however it was shown to activate glucokinase, the enzyme responsible for conversion of glucose to glucose-6-phosphate. Furthermore, benfotiamine-treated groups showed upregulation of the downstream glycolytic enzyme, glyceraldehyde phosphate dehydrogenase (GAPDH). However, in cells where the pentose phosphate pathway was blocked by oxythiamine treatment, there was a clear downregulation of Glut-2, glucokinase, insulin, and GAPDH. When benfotiamine was used to treat mice transplanted with BM-derived IPCs transplanted, their glucose level was brought to a normal range. The glucose challenge of normal mice treated with benfotiamine lead to rapidly normalized blood glucose levels. These results indicate that benfotiamine activates glucose metabolism and insulin synthesis to prevent glucose toxicity caused by high concentrations of blood glucose in diabetes mellitus.
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Affiliation(s)
- Seh-Hoon Oh
- Department of Pathology, Immunology and Laboratory Medicine, College of Medicine, University of Florida, Gainesville, Florida 32610, USA. .edu
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