Carboxylic Acid Derivatives: Nucleophilic Acyl Substitution 20.1
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Amide Bond Formation and Peptide Coupling
Tetrahedron 61 (2005) 10827–10852 Tetrahedron report number 740 Amide bond formation and peptide coupling Christian A. G. N. Montalbetti* and Virginie Falque Evotec, 112 Milton Park, Abingdon OX14 4SD, UK Received 2 August 2005 Available online 19 September 2005 Contents 1. Introduction ................................................................. 10828 2. Amide bond formation: methods and strategies ....................................... 10828 2.1. Acyl halides . .......................................................... 10829 2.1.1. Acyl chlorides .................................................... 10829 2.1.1.1. Acyl chloride formation ...................................... 10829 2.1.1.2. Coupling reactions with acyl chlorides ........................... 10831 2.1.1.3. Limitations of acyl chlorides .................................. 10831 2.1.2. Acyl fluorides .................................................... 10831 2.1.3. Acyl bromides .................................................... 10832 2.2. Acyl azides . .......................................................... 10832 2.3. Acylimidazoles using CDI ................................................. 10833 2.4. Anhydrides . .......................................................... 10834 2.4.1. Symmetric anhydrides .............................................. 10834 2.4.2. Mixed anhydrides .................................................. 10834 2.4.2.1. Mixed carboxylic anhydrides .................................. 10834 2.4.2.2. Mixed carbonic anhydrides ................................... -
Ebook for A2.2 Chemistry
eBook for A2.2 Chemistry Chemistry in Medicine 5.11. [Pages 94 – 107 of A2.2 eBook] • You will be expected to be able to explain the use of indigestion remedies to cure excess hydrochloric acid in the stomach stating the types of compounds used and writing equations for their reactions. • You will be expected to be able to use a back titration to determine the percentage of an active ingredient in an indigestion remedy and perform various calculations on the titration. • You will be expected to be able to explain how to deal with variations in the pH values of skin, explain the role of fatty acids in skin pH and explain the use of corrosive chemicals in removing warts. • You will be expected to be able to recall and explain the use of silver nitrate in the treatment of eye diseases. • You will be expected to be able to explain the action of anticancer drugs, for example cisplatin in preventing DNA replication in cancer cells and how varying the structure of cisplatin affects the efficiency of anticancer activity • You will be expected to be able to carry out titrations to determine the concentration of aspirin in solution and carry out associated calculations. • You will be expected to be able to recall the synthesis of aspirin from salicylic acid and ethanoic anhydride and compare it with the use of ethanoic acid and ethanoyl chloride and explain why the sodium salt of aspirin is often used rather than aspirin. • You will be expected to be able to explain the use of GLC linked to MS to identify drugs and to determine their purity. -
The Relative Rates of Thiol–Thioester Exchange and Hydrolysis for Alkyl and Aryl Thioalkanoates in Water
Orig Life Evol Biosph (2011) 41:399–412 DOI 10.1007/s11084-011-9243-4 PREBIOTIC CHEMISTRY The Relative Rates of Thiol–Thioester Exchange and Hydrolysis for Alkyl and Aryl Thioalkanoates in Water Paul J. Bracher & Phillip W. Snyder & Brooks R. Bohall & George M. Whitesides Received: 14 April 2011 /Accepted: 16 June 2011 / Published online: 5 July 2011 # Springer Science+Business Media B.V. 2011 Abstract This article reports rate constants for thiol–thioester exchange (kex), and for acid- mediated (ka), base-mediated (kb), and pH-independent (kw) hydrolysis of S-methyl thioacetate and S-phenyl 5-dimethylamino-5-oxo-thiopentanoate—model alkyl and aryl thioalkanoates, respectively—in water. Reactions such as thiol–thioester exchange or aminolysis could have generated molecular complexity on early Earth, but for thioesters to have played important roles in the origin of life, constructive reactions would have needed to compete effectively with hydrolysis under prebiotic conditions. Knowledge of the kinetics of competition between exchange and hydrolysis is also useful in the optimization of systems where exchange is used in applications such as self-assembly or reversible binding. For the alkyl thioester S-methyl thioacetate, which has been synthesized in −5 −1 −1 −1 −1 −1 simulated prebiotic hydrothermal vents, ka = 1.5×10 M s , kb = 1.6×10 M s , and −8 −1 kw = 3.6×10 s . At pH 7 and 23°C, the half-life for hydrolysis is 155 days. The second- order rate constant for thiol–thioester exchange between S-methyl thioacetate and 2- −1 −1 sulfonatoethanethiolate is kex = 1.7 M s . -
Chapter 7, Haloalkanes, Properties and Substitution Reactions of Haloalkanes Table of Contents 1
Chapter 7, Haloalkanes, Properties and Substitution Reactions of Haloalkanes Table of Contents 1. Alkyl Halides (Haloalkane) 2. Nucleophilic Substitution Reactions (SNX, X=1 or 2) 3. Nucleophiles (Acid-Base Chemistry, pka) 4. Leaving Groups (Acid-Base Chemistry, pka) 5. Kinetics of a Nucleophilic Substitution Reaction: An SN2 Reaction 6. A Mechanism for the SN2 Reaction 7. The Stereochemistry of SN2 Reactions 8. A Mechanism for the SN1 Reaction 9. Carbocations, SN1, E1 10. Stereochemistry of SN1 Reactions 11. Factors Affecting the Rates of SN1 and SN2 Reactions 12. --Eliminations, E1 and E2 13. E2 and E1 mechanisms and product predictions In this chapter we will consider: What groups can be replaced (i.e., substituted) or eliminated The various mechanisms by which such processes occur The conditions that can promote such reactions Alkyl Halides (Haloalkane) An alkyl halide has a halogen atom bonded to an sp3-hybridized (tetrahedral) carbon atom The carbon–chlorine and carbon– bromine bonds are polarized because the halogen is more electronegative than carbon The carbon-iodine bond do not have a per- manent dipole, the bond is easily polarizable Iodine is a good leaving group due to its polarizability, i.e. its ability to stabilize a charge due to its large atomic size Generally, a carbon-halogen bond is polar with a partial positive () charge on the carbon and partial negative () charge on the halogen C X X = Cl, Br, I Different Types of Organic Halides Alkyl halides (haloalkanes) sp3-hybridized Attached to Attached to Attached -
Chemistry 0310 - Organic Chemistry 1 Chapter 6
Dr. Peter Wipf Chemistry 0310 - Organic Chemistry 1 Chapter 6. SN2 Reactions Nucleophilic substitution reactions occur when nucleophiles (electron-rich species) displace leaving groups on electrophiles (electron-poor species). The net result is the substitution of one group for another bonded to a carbon atom. Nucleophilicity is increased by a negative charge and an increase in the polarizability. The greater the size and the lower the electronegativity of an atom, the greater its polarizability. Leaving groups are stable species that can be detached with their bonding electrons from a molecule during reaction. Most good leaving groups are the conjugate bases of strong acids. Sulfonates (mesylates, tosylates, triflates, etc.) are popular leaving groups since they can be readily obtained from alcohols. Solvents also influence nucleophilicity. SN2 reactions are second-order reactions whose rates depend o the concentration of both the alkyl halide and the nucleophile. The transition state of the one-step SN2 process involves a trigonal bipyramidal carbon and results in an overall inversion of configuration. The order of reactivity of alkyl halides and alkyl sulfonates in SN2 reactions is CH3>1°>2°>3°. The activation energy, DG‡, determines the rate of a reaction: k = koexp(-DG‡/RT). The overall change in free energy, DG, determines the position of the thermodynamic equilibrium. A positive sign of DG is characteristic for an endergonic reaction, a negative DG is found for an exergonic process. The rate of a reaction can be measured and provides information about its mechanism. The reaction order is the sum of the exponents in the rate equation. Relative Leaving Group Abilities: Leaving Group Common Name krel AcO acetate 1 x 10-10 Cl chloride 0.0001 Br bromide 0.001 I iodide 0.01 O mesylate 1.00 H3C S O O O tosylate 0.70 H3C S O O O brosylate 2.62 Br S O O O nosylate 13 O2N S O O O fluorosulfate 29,000 F S O O O triflate 56,000 CF3 S O O O nonaflate 120,000 C4F9 S O O. -
Derivatives of Carboxylic Acid
Derivatives of Carboxylic Acid acid chloride carboxylate nitrile amide acid anhydride ester Nomenclature of Acid Halides IUPAC: alkanoic acid → alkanoyl halide Common: alkanic acid → alkanyl halide I: 3-aminopropanoyl chloride I: 4-nitropentanoyl chloride c: b-aminopropionyl chloride c: g-nitrovaleryl chloride I: hexanedioyl chloride c: adipoyl chloride Rings: (IUPAC only): ringcarbonyl halide I: benzenecarbonyl bromide I: 3-cylcopentenecarbonyl chloride c: benzoyl bromide Nomenclature of Acid Anhydrides Acid anhydrides are prepared by dehydrating carboxylic acids acetic anhydride ethanoic acid ethanoic anhydride I: benzenecarboxylic anhydride I: butanedioic acid I: butanedioic anhydride c: benzoic andhydride c: succinic acid c: succinic anhydride Some unsymmetrical anhydrides I: ethanoic methanoic I: benzoic methanoic anhydride anhydride I: cis-butenedioic c: benzoic formic anhydride anhydride c: acetic formic anhydride Nomenclature of Esters Esters occur when carboxylic acids react with alcohols I: phenyl methanoate I: t-butyl benzenecarboxylate I: methyl ethanoate c: phenyl formate c: methyl acetate c: t-butyl benzoate I: isobutyl I: cyclobutyl 2- I: dimethyl ethanedioate cyclobutanecarboxylate methylpropanoate c: cyclobutyl a- c: dimethyl oxalate c: none methylpropionate Cyclic Esters Reaction of -OH and -COOH on same molecule produces a cyclic ester, lactone. To name, add word lactone to the IUPAC acid name or replace the -ic acid of common name with -olactone. 4-hydroxy-2-methylpentanoic acid lactone -methyl- -valerolactone Amides Product of the reaction of a carboxylic acid and ammonia or an amine. Not basic because the lone pair on nitrogen is delocalized by resonance. Classes of Amides 1 amide has one C-N bond (two N-H). 2 amide or N-substituted amide has two C-N bonds (one N-H). -
KINETICS of HYDROLYSIS of ACETIC ANHYDRIDE by IN-SITU FTIR SPECTROSCOPY an Experiment for the Undergraduate Laboratory
.tA... 5-4._l_a_b _o_r._a_t_o_r.:.y________ ) KINETICS OF HYDROLYSIS OF ACETIC ANHYDRIDE BY IN-SITU FTIR SPECTROSCOPY An Experiment for the Undergraduate Laboratory SHAKER HA.JI, CAN ERKEY University of Connecticut • Storrs, CT 06269-3222 he senior-level chemical engineering undergraduate laboratory course at the University of Connecticut con 2 T sists of two four-hour labs per week, during which groups of three to four students typically perform five ex Quite a few studies have been reported in the literature on the 2 periments during the course of the semester. Each experi kinetics of hydrolysis of acetic anhydride. [J, A,5l Eldridge and ment is studied for either one or two weeks, depending on its Piretl41 obtained the pseudo-first-order reaction rate constant complexity and the scale of the equipment. The students are using a batch reactor. To determine the acetic anhydride con given only the general goals for each experiment and are re centration, samples from the reactor were withdrawn into tared quired to define their own objectives, to develop an experi flasks containing 15-20 times the quantity of saturated aniline mental plan, to prepare a pre-lab report (including a discus water required to react with the sample. Since the anhydride sion of safety measures), to perform the experiments and ana rapidly acetylates the aniline, producing acetanilide and ace lyze the data, and to prepare group or individual written and/ tic acid, the samples were then titrated to determine the con or oral reports. centration of acetic acid. In another study, Shatyski and One or two of the experiments in this course involve reac Hanesianrsi determined the kinetics of the above reaction by tion kinetics. -
Amide, and Paratoluenesulfonamide on the Amide of Silver,On the Imides
68 CHEMISTRY: E. C. FRANKLIN METALLIC SALTS OF AMMONO ACIDS By Edward C. Franklin DEPARTMENT OF CHEMISTRY, STANFORD UNIVERSITY Presented to the Academy, January 9. 1915 The Action of Liquid-Ammonia Solutions of Ammono Acids on Metallic Amides, Imides, and Nitrides. The acid amides and imides, and the metallic derivatives of the acid amides and imides are the acds, bases, and salts respectively of an ammonia system of acids, bases, and salts.1 Guided by the relationships implied in the above statement Franklin and Stafford were able to prepare potassium derivatives of a considerable number of acid amides by the action of potassium amide on certain acid amides in solution in liquid ammonia. That is to say, an ammono base, potassium amide, was found to react with ammono acids in liquid ammonia to form ammono salts just as the aquo base, potassium hydrox- ide, acts upon aquo acids in water solution to form aquo salts. Choos- ing, for example, benzamide and benzoic acid as representative acids of the two systems, the analogous reactions taking place respectively in liquid ammonia and water are represented by the equations: CH6CONH2+KNH2 = C6H5CONHK + NHs. CseHCONH2 + 2KNH2 = CIHsCONK2 + 2NH3. CH6tCOOH + KOH = CIH6COOK + H2O. The ammono acid, since it is dibasic, reacts with either one or two molecules of potassium amide to form an acid and a neutral salt. Having thus demonstrated the possibility of preparing ammono salts of potassium by the interaction of potassium amide and acid amides in liquid ammonia solution, it was further found that ammono salts of the heavy metals may be prepared by the action of liquid ammonia solutions of ammono acids on insoluble metallic amides, imides, and nitrides-that is, by reactions which are analogous to the formation of aquo salts in water by the action of potassium hydroxide on insoluble metallic hydroxides and oxides. -
Amide Activation: an Emerging Tool for Chemoselective Synthesis
Featuring work from the research group of Professor As featured in: Nuno Maulide, University of Vienna, Vienna, Austria Amide activation: an emerging tool for chemoselective synthesis Let them stand out of the crowd – Amide activation enables the chemoselective modification of a large variety of molecules while leaving many other functional groups untouched, making it attractive for the synthesis of sophisticated targets. This issue features a review on this emerging field and its application in total synthesis. See Nuno Maulide et al., Chem. Soc. Rev., 2018, 47, 7899. rsc.li/chem-soc-rev Registered charity number: 207890 Chem Soc Rev View Article Online REVIEW ARTICLE View Journal | View Issue Amide activation: an emerging tool for chemoselective synthesis Cite this: Chem. Soc. Rev., 2018, 47,7899 Daniel Kaiser, Adriano Bauer, Miran Lemmerer and Nuno Maulide * It is textbook knowledge that carboxamides benefit from increased stabilisation of the electrophilic carbonyl carbon when compared to other carbonyl and carboxyl derivatives. This results in a considerably reduced reactivity towards nucleophiles. Accordingly, a perception has been developed of amides as significantly less useful functional handles than their ester and acid chloride counterparts. Received 27th April 2018 However, a significant body of research on the selective activation of amides to achieve powerful DOI: 10.1039/c8cs00335a transformations under mild conditions has emerged over the past decades. This review article aims at placing electrophilic amide activation in both a historical context and in that of natural product rsc.li/chem-soc-rev synthesis, highlighting the synthetic applications and the potential of this approach. Creative Commons Attribution 3.0 Unported Licence. -
Reactions of Benzene & Its Derivatives
Organic Lecture Series ReactionsReactions ofof BenzeneBenzene && ItsIts DerivativesDerivatives Chapter 22 1 Organic Lecture Series Reactions of Benzene The most characteristic reaction of aromatic compounds is substitution at a ring carbon: Halogenation: FeCl3 H + Cl2 Cl + HCl Chlorobenzene Nitration: H2 SO4 HNO+ HNO3 2 + H2 O Nitrobenzene 2 Organic Lecture Series Reactions of Benzene Sulfonation: H 2 SO4 HSO+ SO3 3 H Benzenesulfonic acid Alkylation: AlX3 H + RX R + HX An alkylbenzene Acylation: O O AlX H + RCX 3 CR + HX An acylbenzene 3 Organic Lecture Series Carbon-Carbon Bond Formations: R RCl AlCl3 Arenes Alkylbenzenes 4 Organic Lecture Series Electrophilic Aromatic Substitution • Electrophilic aromatic substitution: a reaction in which a hydrogen atom of an aromatic ring is replaced by an electrophile H E + + + E + H • In this section: – several common types of electrophiles – how each is generated – the mechanism by which each replaces hydrogen 5 Organic Lecture Series EAS: General Mechanism • A general mechanism slow, rate + determining H Step 1: H + E+ E El e ctro - Resonance-stabilized phile cation intermediate + H fast Step 2: E + H+ E • Key question: What is the electrophile and how is it generated? 6 Organic Lecture Series + + 7 Organic Lecture Series Chlorination Step 1: formation of a chloronium ion Cl Cl + + - - Cl Cl+ Fe Cl Cl Cl Fe Cl Cl Fe Cl4 Cl Cl Chlorine Ferric chloride A molecular complex An ion pair (a Lewis (a Lewis with a positive charge containing a base) acid) on ch lorine ch loronium ion Step 2: attack of -
Leaving Group of Substrate Important
1 Recap... • Last two lectures we looked at substitution reactions • We found that there we two (extreme) mechanisms • SN1 H H H H H PhS R H R Br R SPh Br • And SN2 H H H H PhS + Br R Br PhS R • We looked at many of the factors that influenced which ..mechanism was operating... • Now we will turn our attention to elimination reactions 2 Elimination reactions NaOH NaOH or low Br H2O OH concentration • You have seen SN1 substitution • Reaction not sped up by altering nucleophile - it is not in RDS • In fact if we increase the amount / concentration of nucleophile we get the following... high O H + + + Br Br OH concentration H H • We observe an elimination reaction • Overall HBr is lost from the molecule • Isn't chemistry fun - these are the same conditions as substitution! • Next two lectures will look at the mechanisms for elimination • And how we control the nature of the reaction we observe... 3 Elimination, bimolecular E2 O H Br HO Br H H • E2 - Elimination bimolecular or 2nd order reaction • 2 molecules in the RDS or transition state H H H H H C H C H H C Br Br H O H C H O H C C H H H H C H C H H H • Two molecules in the rate determining step • So both the base and the substrate control the reaction • Both carbon skeleton & leaving group of substrate important In substitutions nucleophile acts as a nucleophile & attacks carbon In eliminations nucleophile acts as a base & attacks proton 4 Elimination, bimolecular E2: MO • Little confusing as need bonding & anti-bonding in same diagram! • Orbitals need to be parallel for maximum overlap -
Citric Acid Cycle
CHEM464 / Medh, J.D. The Citric Acid Cycle Citric Acid Cycle: Central Role in Catabolism • Stage II of catabolism involves the conversion of carbohydrates, fats and aminoacids into acetylCoA • In aerobic organisms, citric acid cycle makes up the final stage of catabolism when acetyl CoA is completely oxidized to CO2. • Also called Krebs cycle or tricarboxylic acid (TCA) cycle. • It is a central integrative pathway that harvests chemical energy from biological fuel in the form of electrons in NADH and FADH2 (oxidation is loss of electrons). • NADH and FADH2 transfer electrons via the electron transport chain to final electron acceptor, O2, to form H2O. Entry of Pyruvate into the TCA cycle • Pyruvate is formed in the cytosol as a product of glycolysis • For entry into the TCA cycle, it has to be converted to Acetyl CoA. • Oxidation of pyruvate to acetyl CoA is catalyzed by the pyruvate dehydrogenase complex in the mitochondria • Mitochondria consist of inner and outer membranes and the matrix • Enzymes of the PDH complex and the TCA cycle (except succinate dehydrogenase) are in the matrix • Pyruvate translocase is an antiporter present in the inner mitochondrial membrane that allows entry of a molecule of pyruvate in exchange for a hydroxide ion. 1 CHEM464 / Medh, J.D. The Citric Acid Cycle The Pyruvate Dehydrogenase (PDH) complex • The PDH complex consists of 3 enzymes. They are: pyruvate dehydrogenase (E1), Dihydrolipoyl transacetylase (E2) and dihydrolipoyl dehydrogenase (E3). • It has 5 cofactors: CoASH, NAD+, lipoamide, TPP and FAD. CoASH and NAD+ participate stoichiometrically in the reaction, the other 3 cofactors have catalytic functions.