Role of Epoxide Hydrolases in Lipid Metabolism
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Functional Properties and Molecular Architecture of Leukotriene A4 Hydrolase, a Pivotal Catalyst of Chemotactic Leukotriene Formation
Review Article TheScientificWorldJOURNAL (2002) 2, 1734–1749 ISSN 1537-744X; DOI 10.1100/tsw.2002.810 Functional Properties and Molecular Architecture of Leukotriene A4 Hydrolase, a Pivotal Catalyst of Chemotactic Leukotriene Formation Jesper Z. Haeggström1,*, Pär Nordlund2, and Marjolein M.G.M. Thunnissen2 1Department of Medical Biochemistry and Biophysics, Division of Chemistry 2, Karolinska Institutet, S-171 77 Stockholm, Sweden; 2Department of Biochemistry, University of Stockholm, Arrhenius Laboratories A4, S-106 91 Stockholm, Sweden E-mail: [email protected]; [email protected]; [email protected] Received March 25, 2002; Accepted April 26, 2002; Published June 26, 2002 The leukotrienes are a family of lipid mediators involved in inflammation and allergy. Leukotriene B4 is a classical chemoattractant, which triggers adherence and aggregation of leukocytes to the endothelium at only nM concentrations. In addition, leukotriene B4 modulates immune responses, participates in the host defense against infections, and is a key mediator of PAF-induced lethal shock. Because of these powerful biological effects, leukotriene B4 is implicated in a variety of acute and chronic inflammatory diseases, e.g., nephritis, arthritis, dermatitis, and chronic obstructive pulmonary disease. The final step in the biosynthesis of leukotriene B4 is catalyzed by leukotriene A4 hydrolase, a unique bifunctional zinc metalloenzyme with an anion-dependent aminopeptidase activity. Here we describe the most recent developments regarding our understanding -
Oilseeds As Crop Biofactories for Industrial Raw Materials
AOF Forum, 2004 Grain & chemical industry drivers Oilseeds as crop ! Global competition increasing biofactories for ! Downward pressure on price and market share industrial raw ! Need to diversify away from commodities ! Need to capture maximum value materials Allan Green ! Desirable to replace petroleum with renewable CSIRO Plant Industry sources of industrial raw materials ! Need for increased biodegradability of C O C O C O industrial products C C C C C C O C O C O C Opportunities for industrial use Seed oils are triglycerides ! Current Australian non-food use of vegetable oils ! Seed oils are comprised almost entirely of is about 12,000 tonnes (~3% of total oil usage) triglycerides composed of fatty acids ! Long-term opportunities exist for:- ! Oils are deposited in the seed in oilbodies - direct use in lubricants and inks - bio-diesel fuels (e.g. rapeseed ME) - specialty oleochemicals - pure fatty acids (e.g. oleic acid) - fatty acid derivatives (e.g. erucamide) - alkyl units for polymers (e.g. nylon) - biodegradable plastics - pharmaceutical proteins Fatty acids are like petrochemicals Oil composition can be changed ! Fatty acids are simply hydrocarbon chains ! Seed oils are needed only for energy of various lengths with a carboxyl group storage and release during germination (~COOH) at one end (i.e. no structural role) ! Fatty acids can have bond types or functional groups that allow them to be ! Fatty acid composition can therefore be cleaved or derivatised by chemical dramatically modified, provided that new processing fatty -
Quantum Chemical Studies of Epoxide- Transforming Enzymes
Quantum Chemical Studies of Epoxide- Transforming Enzymes Kathrin H. Hopmann Department of Theoretical Chemistry Royal Institute of Technology Stockholm, Sweden, 2007 ii © Kathrin H. Hopmann, 2007 ISBN 978-91-7178-640-1 ISSN 1654-2312 TRITA-BIO-Report 2007:3 Printed by Universitetsservice US-AB, Stockholm, Sweden. iii Abstract Density functional theory is employed to study the reaction mechanisms of different epoxide-transforming enzymes. Calculations are based on quantum chemical active site models, which are build from X-ray crystal structures. The models are used to study conversion of various epoxides into their corresponding diols or substituted alcohols. Epoxide-transforming enzymes from three different families are studied. The human soluble epoxide hydrolase (sEH) belongs to the α/β-hydrolase fold family. sEH employs a covalent mechanism to hydrolyze various epoxides into vicinal diols. The Rhodococcus erythrobacter limonene epoxide hydrolase (LEH) constitutes a novel epoxide hydrolase, which is considered the founding member of a new family of enzymes. LEH mediates transformation of limone-1,2-epoxide into the corresponding vicinal diol by employing a general acid/general base-mediated mechanism. The Agrobacterium radiobacter AD1 haloalcohol dehalogenase HheC is related to the short-chain dehydrogenase/reductases. HheC is able to convert epoxides using various nucleophiles such as azide, cyanide, and nitrite. Reaction mechanisms of these three enzymes are analyzed in depth and the role of different active site residues is studied through in silico mutations. Steric and electronic factors influencing the regioselectivity of epoxide opening are identified. The computed energetics help to explain preferred reaction pathways and experimentally observed regioselectivities. Our results confirm the usefulness of the employed computational methodology for investigating enzymatic reactions. -
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Enzyme and Microbial Technology 139 (2020) 109592 Contents lists available at ScienceDirect Enzyme and Microbial Technology journal homepage: www.elsevier.com/locate/enzmictec Identification and catalytic properties of new epoxide hydrolases fromthe T genomic data of soil bacteria Gorjan Stojanovskia, Dragana Dobrijevica, Helen C. Hailesb, John M. Warda,* a Department of Biochemical Engineering, University College London, Bernard Katz, London WC1E 6BT, UK b Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK ARTICLE INFO ABSTRACT Keywords: Epoxide hydrolases (EHs) catalyse the conversion of epoxides into vicinal diols. These enzymes have extensive Epoxide hydrolase value in biocatalysis as they can generate enantiopure epoxides and diols which are important and versatile Limonene epoxide hydrolase synthetic intermediates for the fine chemical and pharmaceutical industries. Despite these benefits, theyhave Genome mining seen limited use in the bioindustry and novel EHs continue to be reported in the literature. Biotransformation We identified twenty-nine putative EHs within the genomes of soil bacteria. Eight of these EHs wereexplored in terms of their activity. Two limonene epoxide hydrolases (LEHs) and one ⍺/β EH were active on a model compound styrene oxide and its ring-substituted derivatives, with low to good percentage conversions of 18–86%. Further exploration of the substrate scope with enantiopure (R)-styrene oxide and (S)-styrene oxide, showed different epoxide ring opening regioselectivities. Two enzymes, expressed from plasmids pQR1984and pQR1990 de-symmetrised the meso-epoxide cyclohexene oxide, forming the (R,R)-diol with high enantioselec- tivity. Two LEHs, from plasmids pQR1980 and pQR1982 catalysed the hydrolysis of (+) and (−) limonene oxide, with diastereomeric preference for the (1S,2S,4R)- and (1R,2R,4S)-diol products, respectively. -
Disruption of Soluble Epoxide Hydrolase Dimerization As a Novel Therapeutic Target for Stroke
DISRUPTION OF SOLUBLE EPOXIDE HYDROLASE DIMERIZATION AS A NOVEL THERAPEUTIC TARGET FOR STROKE By Jonathan W. Nelson A THESIS/DISSERTATION Presented to the Department of Molecular and Medical Genetics and the Oregon Health & Science University School of Medicine in partial fulfillment of the requirements for the degree of Doctor of Philosophy April 2013 TABLE OF CONTENTS List of Figures ...................................................................................................................... vi List of Tables ...................................................................................................................... vii List of Abbreviations ......................................................................................................... viii Acknowledgements ........................................................................................................... xiii Dissertation Abstract ........................................................................................................ xvi Chapter 1 Targeting Soluble Epoxide Hydrolase Dimerization As a Stroke Therapy ......... 1 Abstract ........................................................................................................................... 1 Stroke and Society ........................................................................................................... 2 Prevention and Treatment of Stroke .............................................................................. 3 Soluble Epoxide Hydrolase and Stroke .......................................................................... -
NST110: Advanced Toxicology Lecture 4: Phase I Metabolism
Absorption, Distribution, Metabolism and Excretion (ADME): NST110: Advanced Toxicology Lecture 4: Phase I Metabolism NST110, Toxicology Department of Nutritional Sciences and Toxicology University of California, Berkeley Biotransformation The elimination of xenobiotics often depends on their conversion to water-soluble chemicals through biotransformation, catalyzed by multiple enzymes primarily in the liver with contributions from other tissues. Biotransformation changes the properties of a xenobiotic usually from a lipophilic form (that favors absorption) to a hydrophilic form (favoring excretion in the urine or bile). The main evolutionary goal of biotransformation is to increase the rate of excretion of xenobiotics or drugs. Biotransformation can detoxify or bioactivate xenobiotics to more toxic forms that can cause tumorigenicity or other toxicity. Phase I and Phase II Biotransformation Reactions catalyzed by xenobiotic biotransforming enzymes are generally divided into two groups: Phase I and phase II. 1. Phase I reactions involve hydrolysis, reduction and oxidation, exposing or introducing a functional group (-OH, -NH2, -SH or –COOH) to increase reactivity and slightly increase hydrophilicity. O R1 - O S O sulfation O R2 OH Phase II Phase I R1 R2 R1 R2 - hydroxylation COO R1 O O glucuronidation OH R2 HO excretion OH O COO- HN H -NH2 R R1 R1 S N 1 Phase I Phase II COO O O oxidation glutathione R2 OH R2 R2 conjugation 2. Phase II reactions include glucuronidation, sulfation, acetylation, methylation, conjugation with glutathione, and conjugation with amino acids (glycine, taurine and glutamic acid) that strongly increase hydrophilicity. Phase I and II Biotransformation • With the exception of lipid storage sites and the MDR transporter system, organisms have little anatomical defense against lipid soluble toxins. -
Regioselectivity Engineering of Epoxide Hydrolase: Near-Perfect Enantioconvergence Through a Single Site Mutation
Letter Cite This: ACS Catal. 2018, 8, 8314−8317 pubs.acs.org/acscatalysis Regioselectivity Engineering of Epoxide Hydrolase: Near-Perfect Enantioconvergence through a Single Site Mutation † # † ‡ # † † § † Fu-Long Li, , Xu-Dong Kong, , , Qi Chen, Yu-Cong Zheng, Qin Xu, Fei-Fei Chen, † ‡ ‡ † † Li-Qiang Fan, Guo-Qiang Lin, Jiahai Zhou,*, Hui-Lei Yu,*, and Jian-He Xu*, † State Key Laboratory of Bioreactor Engineering, Shanghai Collaborative Innovation Center for Biomanufacturing Technology, East China University of Science and Technology, Shanghai 200237, China ‡ Center for Excellence in Molecular Synthesis, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China § State Key Laboratory of Microbial Metabolism, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China *S Supporting Information ABSTRACT: An epoxide hydrolase from Vigna radiata (VrEH2) affords partial enantioconvergence (84% ee)intheenzymatic hydrolysis of racemic p-nitrostyrene oxide (pNSO), mainly due to ffi α β insu cient regioselectivity for the (S)-enantiomer (rS = S/ S = 7.3). To improve the (S)-pNSO regioselectivity, a small but smart library of VrEH2 mutants was constructed by substituting each of four key residues lining the substrate binding site with a simplified amino acid alphabet of Val, Asn, Phe, and Trp. Among the mutants, M263N attacked almost exclusively at Cα in the (S)-epoxide ring with satisfactory regioselectivity (rS = 99.0), without compromising the original high regioselectivity for the (R)-epoxide (rR = 99.0), resulting in near-perfect enantioconvergence (>99% analytical yield, 98% ee). Structural and conformational analysis showed that the introduced Asn263 formed additional hydrogen bonds with the nitro group in substrate, causing a shift in the substrate binding pose. -
Analysis of Soybean Embryonic Axis Proteins by Two-Dimensional Gel Electrophoresis and Mass Spectrometry
Journal of Basic & Applied Sciences, 2013, 9, 309-332 309 Analysis of Soybean Embryonic Axis Proteins by Two-Dimensional Gel Electrophoresis and Mass Spectrometry Savithiry S. Natarajana,*, Hari B. Krishnanb, Farooq Khana, Xi Chena, Wesley M. Garrettc and Dilip Lakshmand aUSDA-ARS, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705, USA bUSDA-ARS, Plant Genetics Research Unit, University of Missouri, Columbia, MO 65211, USA cUSDA-ARS, Animal Science and Biotechnology Laboratory, Beltsville, MD 20705, USA dUSDA-ARS, Sustainable Agricultural Systems Laboratory, Beltsville, MD 20705, USA Abstract: A proteomic approach based on two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) for protein separation and subsequent mass spectrometry (MS) for protein identification was applied to establish a proteomic reference map for the soybean embryonic axis. Proteins were extracted from dissected embryonic axes and separated in the first dimension using a pH range from 4-7. A total of 401 protein spots were isolated, digested with trypsin, and analyzed by liquid chromatography-tandem mass spectrometry (LC-MS/MS). We identified 335 protein spots by searching National Center for Biotechnology Information (NCBI) non redundant databases using the Mascot search engine and found a total of 200 unique proteins. Gene Ontology (GO) analysis was employed to understand the molecular processes in which the identified embryonic axes proteins are involved. The majority of proteins play a functional role in catalytic activity (42.9%) and binding (39.3%), followed by nutrient reservoir activity (5.3%), structural molecular activity (4.0%), antioxidant activity (3.2%), transporter activity (2.4%), enzyme regulator activity (1.2%), molecular transducer activity (0.8%), and transcription regulator activity (0.8%). -
Capturing LTA4 Hydrolase in Action: Insights to the Chemistry and Dynamics of Chemotactic LTB4 Synthesis Alena Stsiapanavaa, Bengt Samuelssona,1, and Jesper Z
Capturing LTA4 hydrolase in action: Insights to the chemistry and dynamics of chemotactic LTB4 synthesis Alena Stsiapanavaa, Bengt Samuelssona,1, and Jesper Z. Haeggströma,1 aDivision of Physiological Chemistry II, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, S-171 77 Stockholm, Sweden Contributed by Bengt Samuelsson, July 29, 2017 (sent for review June 19, 2017; reviewed by Marcia E. Newcomer and Takao Shimizu) Human leukotriene (LT) A4 hydrolase/aminopeptidase (LTA4H) is a present report, we describe successful trapping and structure bifunctional enzyme that converts the highly unstable epoxide determination of LTA4H-LTA4 complexes providing insights to intermediate LTA4 into LTB4, a potent leukocyte activating agent, the EH mechanism. Moreover, we show that LTA4H undergoes while the aminopeptidase activity cleaves and inactivates the che- domain movements, with structural alterations indicating gated motactic tripeptide Pro-Gly-Pro. Here, we describe high-resolution substrate entrance into the active site followed by induced fit to crystal structures of LTA4H complexed with LTA4, providing the achieve optimal alignment and catalysis. structural underpinnings of the enzyme’s unique epoxide hydro- + lase (EH) activity, involving Zn2 , Y383, E271, D375, and two cata- Results and Discussion lytic waters. The structures reveal that a single catalytic water is In this study, we describe six different structures of LTA4H from involved in both catalytic activities of LTA4H, alternating between five distinct crystal forms. These visualize two conformational epoxide ring opening and peptide bond hydrolysis, assisted by states of the enzyme (Tables S1 and S2). The mutants we in- E271 and E296, respectively. Moreover, we have found two con- vestigated include variants E271A (12), D375N (13), and R563A formations of LTA4H, uncovering significant domain movements. -
Genomic Platforms and Molecular Physiology of Insect Stress Tolerance
Genomic Platforms and Molecular Physiology of Insect Stress Tolerance DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Justin Peyton MS Graduate Program in Evolution, Ecology and Organismal Biology The Ohio State University 2015 Dissertation Committee: Professor David L. Denlinger Advisor Professor Zakee L. Sabree Professor Amanda A. Simcox Professor Joseph B. Williams Copyright by Justin Tyler Peyton 2015 Abstract As ectotherms with high surface area to volume ratio, insects are particularly susceptible to desiccation and low temperature stress. In this dissertation, I examine the molecular underpinnings of two facets of these stresses: rapid cold hardening and cryoprotective dehydration. Rapid cold hardening (RCH) is an insect’s ability to prepare for cold stress when that stress is preceded by an intermediate temperature for minutes to hours. In order to gain a better understanding of cold shock, recovery from cold shock, and RCH in Sarcophaga bullata I examine the transcriptome with microarray and the metabolome with gas chromatography coupled with mass spectrometry (GCMS) in response to these treatments. I found that RCH has very little effect on the transcriptome, but results in a shift from aerobic metabolism to glycolysis/gluconeogenesis during RCH and preserved metabolic homeostasis during recovery. In cryoprotective dehydration (CD), a moisture gradient is established between external ice and the moisture in the body of an insect. As temperatures decline, the external ice crystals grow, drawing in more moisture which dehydrates the insect causing its melting point to track the ambient temperature. To gain a better understanding of CD and dehydration in Belgica antarctica I explore the transcriptome with RNA sequencing ii and the metabolome with GCMS. -
Ω-3 Polyunsaturated Fatty Acids on Colonic Inflammation and Colon Cancer: Roles of Lipid- Metabolizing Enzymes Involved
Review ω-3 Polyunsaturated Fatty Acids on Colonic Inflammation and Colon Cancer: Roles of Lipid- Metabolizing Enzymes Involved Maolin Tu 1,2, Weicang Wang 3, Guodong Zhang 1,4 and Bruce D. Hammock 3,* 1 Department of Food Science, University of Massachusetts, Amherst, MA 01002, USA; [email protected] (M.T.); [email protected] (G.Z.) 2 Department of Food Science and Technology, National Engineering Research Center of Seafood, Collaborative Innovation Center of Seafood Deep Processing, Dalian Polytechnic University, Dalian 116034, China 3 Department of Entomology and Comprehensive Cancer Center, University of California, Davis, CA 95616, USA; [email protected] 4 Molecular and Cellular Biology Graduate Program, University of Massachusetts, Amherst, MA 01002, USA * Correspondence: [email protected]; Tel.: +1-530-752-7519 Received: 23 September 2020; Accepted: 24 October 2020; Published: 28 October 2020 Abstract: Substantial human and animal studies support the beneficial effects of ω-3 polyunsaturated fatty acids (PUFAs) on colonic inflammation and colorectal cancer (CRC). However, there are inconsistent results, which have shown that ω-3 PUFAs have no effect or even detrimental effects, making it difficult to effectively implement ω-3 PUFAs for disease prevention. A better understanding of the molecular mechanisms for the anti-inflammatory and anticancer effects of ω-3 PUFAs will help to clarify their potential health-promoting effects, provide a scientific base for cautions for their use, and establish dietary recommendations. In this review, we summarize recent studies of ω-3 PUFAs on colonic inflammation and CRC and discuss the potential roles of ω-3 PUFA-metabolizing enzymes, notably the cytochrome P450 monooxygenases, in mediating the actions of ω-3 PUFAs. -
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PRODUCT INFORMATION (±)12(13)-EpOME Item No. 52450 Formal Name: (±)12(13)epoxy-9Z-octadecenoic acid Synonyms: (±)2,13-EODE, Isoleukotoxin, COOH (±)-Vernolic Acid MF: C18H32O3 FW: 296.5 Chemical Purity: ≥98% O Supplied as: A solution in methyl acetate NOTE: Relative stereochemistry shown in chemical structure Storage: -20°C Stability: ≥1 year Information represents the product specifications. Batch specific analytical results are provided on each certificate of analysis. Laboratory Procedures (±)12(13)-EpOME is supplied as a solution in methyl acetate. To change the solvent, simply evaporate the methyl acetate under a gentle stream of nitrogen and immediately add the solvent of choice. Solvents such as ethanol, DMSO, and dimethyl formamide purged with an inert gas can be used. The solubility of (±)12(13)-EpOME in these solvents is approximately 50 mg/ml. Further dilutions of the stock solution into aqueous buffers or isotonic saline should be made prior to performing biological experiments. Ensure that the residual amount of organic solvent is insignificant, since organic solvents may have physiological effects at low concentrations. If an organic solvent-free solution of (±)12(13)-EpOME is needed, it can be prepared by evaporating the methyl acetate and directly dissolving the neat oil in aqueous buffers. The solubility of (±)12(13)-EpOME in PBS (pH 7.2) is approximately 1 mg/ml. We do not recommend storing the aqueous solution for more than one day. Description (±)12(13)-EpOME is the 12,13-cis epoxide form of linoleic acid (Item Nos. 90150 | 90150.1 | 21909).1,2 It is formed primarily via linoleic acid metabolism by the cytochrome P450 (CYP) isoforms CYP2J2, CYP2C8, and CYP2C9, however, CYP1A1 can contribute to (±)12(13)-EpOME production when pharmacologically induced.2 (±)12(13)-EpOME (500 µM) induces mitochondrial dysfunction and cell death in renal proximal tubule epithelial cells.