Fatty Acids (Which Are Carboxylic Acids Or -COOH)
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De Novo Biosynthesis of Terminal Alkyne-Labeled Natural Products
De novo biosynthesis of terminal alkyne-labeled natural products Xuejun Zhu1,2, Joyce Liu2,3, Wenjun Zhang1,2,4* 1Department of Chemical and Biomolecular Engineering, 2Energy Biosciences Institute, 3Department of Bioengineering, University of California, Berkeley, CA 94720, USA. 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA. *e-mail:[email protected] 1 Abstract: The terminal alkyne is a functionality widely used in organic synthesis, pharmaceutical science, material science, and bioorthogonal chemistry. This functionality is also found in acetylenic natural products, but the underlying biosynthetic pathways for its formation are not well understood. Here we report the characterization of the first carrier protein- dependent terminal alkyne biosynthetic machinery in microbes. We further demonstrate that this enzymatic machinery can be exploited for the in situ generation and incorporation of terminal alkynes into two natural product scaffolds in E. coli. These results highlight the prospect for tagging major classes of natural products, including polyketides and polyketide/non-ribosomal peptide hybrids, using biosynthetic pathway engineering. 2 Natural products are important small molecules widely used as drugs, pesticides, herbicides, and biological probes. Tagging natural products with a unique chemical handle enables the visualization, enrichment, quantification, and mode of action study of natural products through bioorthogonal chemistry1-4. One prevalent bioorthogonal reaction is -
Phospholipid:Diacylglycerol Acyltransferase: an Enzyme That Catalyzes the Acyl-Coa-Independent Formation of Triacylglycerol in Yeast and Plants
Phospholipid:diacylglycerol acyltransferase: An enzyme that catalyzes the acyl-CoA-independent formation of triacylglycerol in yeast and plants Anders Dahlqvist*†‡, Ulf Ståhl†§, Marit Lenman*, Antoni Banas*, Michael Lee*, Line Sandager¶, Hans Ronne§, and Sten Stymne¶ *Scandinavian Biotechnology Research (ScanBi) AB, Herman Ehles Va¨g 2 S-26831 Svaloˆv, Sweden; ¶Department of Plant Breeding Research, Swedish University of Agricultural Sciences, Herman Ehles va¨g 2–4, S-268 31 Svalo¨v, Sweden; and §Department of Plant Biology, Uppsala Genetic Center, Swedish University of Agricultural Sciences, Box 7080, S-750 07 Uppsala, Sweden Edited by Christopher R. Somerville, Carnegie Institution of Washington, Stanford, CA, and approved March 31, 2000 (received for review February 15, 2000) Triacylglycerol (TAG) is known to be synthesized in a reaction that acid) and epoxidated fatty acid (vernolic acid) in TAG in castor uses acyl-CoA as acyl donor and diacylglycerol (DAG) as acceptor, bean (Ricinus communis) and the hawk’s-beard Crepis palaestina, and which is catalyzed by the enzyme acyl-CoA:diacylglycerol respectively. Furthermore, a similar enzyme is shown to be acyltransferase. We have found that some plants and yeast also present in the yeast Saccharomyces cerevisiae, and the gene have an acyl-CoA-independent mechanism for TAG synthesis, encoding this enzyme, YNR008w, is identified. which uses phospholipids as acyl donors and DAG as acceptor. This reaction is catalyzed by an enzyme that we call phospholipid:dia- Materials and Methods cylglycerol acyltransferase, or PDAT. PDAT was characterized in Yeast Strains and Plasmids. The wild-type yeast strains used were microsomal preparations from three different oil seeds: sunflower, either FY1679 (MAT␣ his3-⌬200 leu2-⌬1 trp1-⌬6 ura3-52) (9) or castor bean, and Crepis palaestina. -
Chapter 21 the Chemistry of Carboxylic Acid Derivatives
Instructor Supplemental Solutions to Problems © 2010 Roberts and Company Publishers Chapter 21 The Chemistry of Carboxylic Acid Derivatives Solutions to In-Text Problems 21.1 (b) (d) (e) (h) 21.2 (a) butanenitrile (common: butyronitrile) (c) isopentyl 3-methylbutanoate (common: isoamyl isovalerate) The isoamyl group is the same as an isopentyl or 3-methylbutyl group: (d) N,N-dimethylbenzamide 21.3 The E and Z conformations of N-acetylproline: 21.5 As shown by the data above the problem, a carboxylic acid has a higher boiling point than an ester because it can both donate and accept hydrogen bonds within its liquid state; hydrogen bonding does not occur in the ester. Consequently, pentanoic acid (valeric acid) has a higher boiling point than methyl butanoate. Here are the actual data: INSTRUCTOR SUPPLEMENTAL SOLUTIONS TO PROBLEMS • CHAPTER 21 2 21.7 (a) The carbonyl absorption of the ester occurs at higher frequency, and only the carboxylic acid has the characteristic strong, broad O—H stretching absorption in 2400–3600 cm–1 region. (d) In N-methylpropanamide, the N-methyl group is a doublet at about d 3. N-Ethylacetamide has no doublet resonances. In N-methylpropanamide, the a-protons are a quartet near d 2.5. In N-ethylacetamide, the a- protons are a singlet at d 2. The NMR spectrum of N-methylpropanamide has no singlets. 21.9 (a) The first ester is more basic because its conjugate acid is stabilized not only by resonance interaction with the ester oxygen, but also by resonance interaction with the double bond; that is, the conjugate acid of the first ester has one more important resonance structure than the conjugate acid of the second. -
Thermal Stability of Oleic Acid and Ethyl Linoleate
Chapter 3.1 ____________________________________________________________________ Thermal Stability of Oleic Acid and Ethyl Linoleate The first part of this work consisted of studying the thermal stability of oleic acid, which was initially a candidate as a starting material for the dehydrogenation of fatty acids using heterogeneous catalysis. The results induced us to search another starting material and to study its properties. 3.1.1 Introduction Oil-derived products can be subjected to conditions that promote oxidation of their unsaturated components during storage and use. The materials arising during oxidation and subsequent degradation can seriously impair the quality and performance of such products [1, 2]. Thus, oxidative stability is an important issue to face before studying their catalytic reactivity. The fatty acid alkyl chain is susceptible to oxidation both at double bonds and adjacent allylic carbons. Free-radical and photooxidation at allylic carbons are responsible for deterioration of unsaturated oils and fats [2-6]. Both autoxidation and photooxidation produce hydroperoxides in allylic bonds. During this process, the position and geometry of the double bond may change. The hydroperoxide mixtures produced by autoxidation and photooxidation are not identical, indicating that different mechanisms are involved [4-6]. The autoxidation reaction occurs in the presence of oxygen. Autoxidation is a free-radical chain reaction, which involves the series of reactions that initiate, propagate and terminate the chain [3]. • initiation RH → R • + → • propagation R O2 ROO fast • • ROO + RH → ROOH + R rate determining • • termination R , ROO → stable products The initiator is a free radical, most probably produced by decomposition of hydroperoxides already present or produced by photooxidation. -
Metabolic-Hydroxy and Carboxy Functionalization of Alkyl Moieties in Drug Molecules: Prediction of Structure Influence and Pharmacologic Activity
molecules Review Metabolic-Hydroxy and Carboxy Functionalization of Alkyl Moieties in Drug Molecules: Prediction of Structure Influence and Pharmacologic Activity Babiker M. El-Haj 1,* and Samrein B.M. Ahmed 2 1 Department of Pharmaceutical Sciences, College of Pharmacy and Health Sciences, University of Science and Technology of Fujairah, Fufairah 00971, UAE 2 College of Medicine, Sharjah Institute for Medical Research, University of Sharjah, Sharjah 00971, UAE; [email protected] * Correspondence: [email protected] Received: 6 February 2020; Accepted: 7 April 2020; Published: 22 April 2020 Abstract: Alkyl moieties—open chain or cyclic, linear, or branched—are common in drug molecules. The hydrophobicity of alkyl moieties in drug molecules is modified by metabolic hydroxy functionalization via free-radical intermediates to give primary, secondary, or tertiary alcohols depending on the class of the substrate carbon. The hydroxymethyl groups resulting from the functionalization of methyl groups are mostly oxidized further to carboxyl groups to give carboxy metabolites. As observed from the surveyed cases in this review, hydroxy functionalization leads to loss, attenuation, or retention of pharmacologic activity with respect to the parent drug. On the other hand, carboxy functionalization leads to a loss of activity with the exception of only a few cases in which activity is retained. The exceptions are those groups in which the carboxy functionalization occurs at a position distant from a well-defined primary pharmacophore. Some hydroxy metabolites, which are equiactive with their parent drugs, have been developed into ester prodrugs while carboxy metabolites, which are equiactive to their parent drugs, have been developed into drugs as per se. -
Methyl Substitution Effects on the Proton Chemical Shifts in Benzene *
Methyl Substitution Effects on the Proton Chemical Shifts in Benzene * G. S. REDDY E. I. du Pont de Nemours & Company, Inc. Explosives Department, Eastern Laboratory, Gibbstown, New Jersey, U.S.A. (Z. Naturforschg. 21 a, 609—615 [1966] ; received 16 December 1965) Methyl substitution effects on aromatic and methyl proton chemical shifts in several mono-, di-, and trimethyl benzenes are studied. A new method for obtaining the changes in the ring proton chemical shifts from those of methyl proton shifts at the corresponding positions is used. The extra jr-electron densities in toluene are calculated using the already known relation between the jr-elec- tron densities and the proton shifts in aromatic systems. An inverse relationship is obtained between the ionization potentials and the total methyl effects on the chemical shifts in this series of com- pounds as one would expect. Dipole moment of toluene is calculated, and a reasonably good agree- ment is found between the experimentally observed and the calculated dipole moment. Several efforts have been made from time to Considerable work has also been done in estimat- time to study the substitution effects on chemical ing ir-electron densities from chemical shift meas- shifts and coupling constants. One of the earliest urements in unsaturated systems. This study in- attempts in this line are those of CAVANAUGH and volves extension of the substitution effects and also DAILEY 1 who tried to study the effect of multiple estimating jr-electron densities in methyl benzenes. methyl substitution in methane. They encountered Eight mono-, di-, and trimethyl substituted benzenes negative shifts contrary to expectations based on have been studied, and a new technique has been inductive and hyperconjugative effects of the methyl deployed to obtain the methyl substitution effects group which eventually was attributed to the an- on the chemical shifts of ring protons from proton isotropy effect of the added C — C bonds 2-7. -
Fatty Acid Diets: Regulation of Gut Microbiota Composition and Obesity and Its Related Metabolic Dysbiosis
International Journal of Molecular Sciences Review Fatty Acid Diets: Regulation of Gut Microbiota Composition and Obesity and Its Related Metabolic Dysbiosis David Johane Machate 1, Priscila Silva Figueiredo 2 , Gabriela Marcelino 2 , Rita de Cássia Avellaneda Guimarães 2,*, Priscila Aiko Hiane 2 , Danielle Bogo 2, Verônica Assalin Zorgetto Pinheiro 2, Lincoln Carlos Silva de Oliveira 3 and Arnildo Pott 1 1 Graduate Program in Biotechnology and Biodiversity in the Central-West Region of Brazil, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; [email protected] (D.J.M.); [email protected] (A.P.) 2 Graduate Program in Health and Development in the Central-West Region of Brazil, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; pri.fi[email protected] (P.S.F.); [email protected] (G.M.); [email protected] (P.A.H.); [email protected] (D.B.); [email protected] (V.A.Z.P.) 3 Chemistry Institute, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; [email protected] * Correspondence: [email protected]; Tel.: +55-67-3345-7416 Received: 9 March 2020; Accepted: 27 March 2020; Published: 8 June 2020 Abstract: Long-term high-fat dietary intake plays a crucial role in the composition of gut microbiota in animal models and human subjects, which affect directly short-chain fatty acid (SCFA) production and host health. This review aims to highlight the interplay of fatty acid (FA) intake and gut microbiota composition and its interaction with hosts in health promotion and obesity prevention and its related metabolic dysbiosis. -
Alpha-Linolenic Acid COMMON NAME: ALA Omega-3
Supplements to help manage total cholesterol, LDL and HDL Alpha-Linolenic Acid COMMON NAME: ALA omega-3 SCIENTIFIC NAME: ALA, 18:3 n-3 RECOMMENDED WITH CAUTION LEVELS OF EVIDENCE 1 2 Recommended: Recommended with Caution: Several well-designed studies in humans Preliminary studies suggest some benefit. have shown positive benefit. Our team is Future trials are needed before we can confident about its therapeutic potential. make a stronger recommendation. 3 4 Not Recommended - Evidence: Not Recommended - High Risk: Our team does not recommend this Our team recommends against using this product because clinical trials to date product because clinical trials to date suggest little or no benefit. suggest substantial risk greater than the benefit. Evaluated Benefits Reduces total cholesterol, LDL cholesterol, and triglycerides Supported by P&G HeartHealth-RecommendedWithCaution.indd 1 6/27/2017 9:41:39 AM Source Dietary alpha-linolenic acid is found primarily in vegetable oils, such as flaxseed (linseed) oil and canola (rapeseed) oil. Walnuts are the only edible nuts with significant amounts of alpha-linolenic acid. Alpha-linolenic acid is found in smaller amounts in green leafy vegetables and chocolate. ALA is an essential fatty acid that must be consumed for you to have any in your body. Indications/Population Lowering of LDL cholesterol/hyperlipidemia and metabolic syndrome Mechanism of Action It may increase insulin sensitivity directly, or decrease hepatic fat storage. Some (2–15%) is convert- ed to eicosapentaenoic acid (EPA), and less (<2%) to docosahexaenoic acid (DHA). The effects of ALA on serum lipids were, for the most part, not consistent with that reported for the very long-chain omega-3 fatty acids, EPA and DHA. -
Fruits of the Pitahaya Hylocereus Undatus and H. Ocamponis
Journal of Applied Botany and Food Quality 93, 197 - 203 (2020), DOI:10.5073/JABFQ.2020.093.024 1Instituto de Horticultura, Departamento de Fitotecnia. Universidad Autónoma Chapingo, Estado de Mexico 2Instituto de Alimentos, Departmento de Ingenieria Agroindustrial. Universidad Autónoma Chapingo, Estado de Mexico Fruits of the pitahaya Hylocereus undatus and H. ocamponis: nutritional components and antioxidants Lyzbeth Hernández-Ramos1, María del Rosario García-Mateos1*, Ana María Castillo-González1, Carmen Ybarra-Moncada2, Raúl Nieto-Ángel1 (Submitted: May 2, 2020; Accepted: September 15, 2020) Summary epicarp of bracts. In addition, it is important to point out that “pitaya” The pitahaya (Hylocereus spp.) is a cactus native to America. and “pitahaya” have been used incorrectly as synonyms (IBRAHIM Despite the great diversity of species located in Mexico, there are et al., 2018; LE BELLEC et al., 2006). “Pitaya” corresponds to the few studies on the nutritional and nutraceutical value of its exotic genus Stenocereus (QUIROZ-GONZÁLEZ et al., 2018), while “pitahaya” fruits, ancestrally consumed in the Mayan culture. An evaluation was corresponds to the genus Hylocereus (WU et al., 2006). Research on made regarding the physical-chemical characteristics, the nutritional pitahaya was done in this study. components and the antioxidants of the fruits of H. ocamponis The fruit of H. ocamponis (Salm-Dyck) Britton & Rose, known as (mesocarp or red pulp) and H. undatus (white pulp), species of great pitahaya solferina (red epicarp, red, pink or purple mesocarp) is a native commercial importance. The pulp of the fruits presented nutritional species of Mexico (GARCÍA-RUBIO et al., 2015), little documented, and nutraceutical differences between both species. -
2 Reactions Observed with Alkanes Do Not Occur with Aromatic Compounds 2 (SN2 Reactions Never Occur on Sp Hybridized Carbons!)
Reactions of Aromatic Compounds Aromatic compounds are stabilized by this “aromatic stabilization” energy Due to this stabilization, normal SN2 reactions observed with alkanes do not occur with aromatic compounds 2 (SN2 reactions never occur on sp hybridized carbons!) In addition, the double bonds of the aromatic group do not behave similar to alkene reactions Aromatic Substitution While aromatic compounds do not react through addition reactions seen earlier Br Br Br2 Br2 FeBr3 Br With an appropriate catalyst, benzene will react with bromine The product is a substitution, not an addition (the bromine has substituted for a hydrogen) The product is still aromatic Electrophilic Aromatic Substitution Aromatic compounds react through a unique substitution type reaction Initially an electrophile reacts with the aromatic compound to generate an arenium ion (also called sigma complex) The arenium ion has lost aromatic stabilization (one of the carbons of the ring no longer has a conjugated p orbital) Electrophilic Aromatic Substitution In a second step, the arenium ion loses a proton to regenerate the aromatic stabilization The product is thus a substitution (the electrophile has substituted for a hydrogen) and is called an Electrophilic Aromatic Substitution Energy Profile Transition states Transition states Intermediate Potential E energy H Starting material Products E Reaction Coordinate The rate-limiting step is therefore the formation of the arenium ion The properties of this arenium ion therefore control electrophilic aromatic substitutions (just like any reaction consider the stability of the intermediate formed in the rate limiting step) 1) The rate will be faster for anything that stabilizes the arenium ion 2) The regiochemistry will be controlled by the stability of the arenium ion The properties of the arenium ion will predict the outcome of electrophilic aromatic substitution chemistry Bromination To brominate an aromatic ring need to generate an electrophilic source of bromine In practice typically add a Lewis acid (e.g. -
Functional Groups Kimberly Hatch Harrison
Functional Groups Kimberly Hatch Harrison Functional groups are those small chemical species you see hanging off the outside of a molecule. Just a handful of these functional groups de- termine most of the chemical reactions that happen between biological molecules. If you memorize the chemical behavior of these functional groups, you’ll be able to predict what kinds of reactions biological molecules can do. You can’t open a lock with a screwdriver–the shape of a screwdriver is quite different from a key, which means it has a dif- ferent function. "Form determines function" is something you’ll hear over and over in biochemistry, and that’s because it’s true. The over- all 3-dimensional shape of a molecule allows it to fit into another molecule, like how a key fits into a lock. But not all keys are the same. You have to look closely at the teeth of a key to see which lock it can open. Similarly, you need to look at the details of the outside of a molecule to understand what kinds of chemical interactions it can do with other molecules. How the carbon skeleton of a biological molecule is folded up de- termines its general 3D shape. So that’s one level of understanding– this molecule looks like a key, this one looks like a lock, etc. But then you must look closer, at the surface details, to understand exactly which key, exactly what kind of lock. When you examine the outside of a biological molecule, you can identify which functional groups are standing out on its surface, like little flags. -
Polyunsaturated Fatty Acids and Their Potential Therapeutic Role in Cardiovascular System Disorders—A Review
nutrients Review Polyunsaturated Fatty Acids and Their Potential Therapeutic Role in Cardiovascular System Disorders—A Review Ewa Sokoła-Wysocza ´nska 1, Tomasz Wysocza ´nski 2, Jolanta Wagner 2,3, Katarzyna Czyz˙ 4,*, Robert Bodkowski 4, Stanisław Lochy ´nski 3,5 and Bozena˙ Patkowska-Sokoła 4 1 The Lumina Cordis Foundation, Szymanowskiego Street 2/a, 51-609 Wroclaw, Poland; [email protected] 2 FLC Pharma Ltd., Wroclaw Technology Park Muchoborska Street 18, 54-424 Wroclaw, Poland; [email protected] (T.W.); jolanta.pekala@flcpharma.com (J.W.) 3 Department of Bioorganic Chemistry, Faculty of Chemistry, University of Technology, Wybrzeze Wyspianskiego Street 27, 50-370 Wroclaw, Poland; [email protected] 4 Institute of Animal Breeding, Faculty of Biology and Animal Sciences, Wroclaw University of Environmental and Life Sciences, Chelmonskiego Street 38c, 50-001 Wroclaw, Poland; [email protected] (R.B.); [email protected] (B.P.-S.) 5 Institute of Cosmetology, Wroclaw College of Physiotherapy, Kosciuszki 4 Street, 50-038 Wroclaw, Poland * Correspondence: [email protected]; Tel.: +48-71-320-5781 Received: 23 August 2018; Accepted: 19 October 2018; Published: 21 October 2018 Abstract: Cardiovascular diseases are described as the leading cause of morbidity and mortality in modern societies. Therefore, the importance of cardiovascular diseases prevention is widely reflected in the increasing number of reports on the topic among the key scientific research efforts of the recent period. The importance of essential fatty acids (EFAs) has been recognized in the fields of cardiac science and cardiac medicine, with the significant effects of various fatty acids having been confirmed by experimental studies.