Chapter 8 - Alkenes and Alkynes II
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Prebiological Evolution and the Metabolic Origins of Life
Prebiological Evolution and the Andrew J. Pratt* Metabolic Origins of Life University of Canterbury Keywords Abiogenesis, origin of life, metabolism, hydrothermal, iron Abstract The chemoton model of cells posits three subsystems: metabolism, compartmentalization, and information. A specific model for the prebiological evolution of a reproducing system with rudimentary versions of these three interdependent subsystems is presented. This is based on the initial emergence and reproduction of autocatalytic networks in hydrothermal microcompartments containing iron sulfide. The driving force for life was catalysis of the dissipation of the intrinsic redox gradient of the planet. The codependence of life on iron and phosphate provides chemical constraints on the ordering of prebiological evolution. The initial protometabolism was based on positive feedback loops associated with in situ carbon fixation in which the initial protometabolites modified the catalytic capacity and mobility of metal-based catalysts, especially iron-sulfur centers. A number of selection mechanisms, including catalytic efficiency and specificity, hydrolytic stability, and selective solubilization, are proposed as key determinants for autocatalytic reproduction exploited in protometabolic evolution. This evolutionary process led from autocatalytic networks within preexisting compartments to discrete, reproducing, mobile vesicular protocells with the capacity to use soluble sugar phosphates and hence the opportunity to develop nucleic acids. Fidelity of information transfer in the reproduction of these increasingly complex autocatalytic networks is a key selection pressure in prebiological evolution that eventually leads to the selection of nucleic acids as a digital information subsystem and hence the emergence of fully functional chemotons capable of Darwinian evolution. 1 Introduction: Chemoton Subsystems and Evolutionary Pathways Living cells are autocatalytic entities that harness redox energy via the selective catalysis of biochemical transformations. -
Chapter 3 • Ratio: Cnh2n+2
Organic Chemistry, 5th Edition Alkane Formulas L. G. Wade, Jr. • All C-C single bonds • Saturated with hydrogens Chapter 3 • Ratio: CnH2n+2 Structure and Stereochemistry • Alkane homologs: CH3(CH2)nCH3 of Alkanes • Same ratio for branched alkanes H H H H H H CH H C C C C H H H H C CCH Jo Blackburn H H H H H H Richland College, Dallas, TX H => Butane, C4H10 Dallas County Community College District Chapter 3Isobutane, C H 2 © 2003, Prentice Hall 4 10 Common Names Pentanes H H H H H H H CH • Isobutane, “isomer of butane” H C C C C C H H H • Isopentane, isohexane, etc., methyl H H H H H H H C CCC H branch on next-to-last carbon in chain. H H H H • Neopentane, most highly branched n-pentane, C5H12 isopentane, C5H12 • Five possible isomers of hexane, CH3 18 isomers of octane and 75 for H3C C CH3 decane! CH3 => => neopentane, C5H12 Chapter 3 3 Chapter 3 4 Longest Chain IUPAC Names • The number of carbons in the longest • Find the longest continuous carbon chain determines the base name: chain. ethane, hexane. (Listed in Table 3.2, • Number the carbons, starting closest to page 81.) the first branch. • If there are two possible chains with the • Name the groups attached to the chain, same number of carbons, use the chain using the carbon number as the locator. with the most substituents. • Alphabetize substituents. H3C CH CH CH • Use di-, tri-, etc., for multiples of same 2 3 CH3 substituent. -
Organic Chemistry
Wisebridge Learning Systems Organic Chemistry Reaction Mechanisms Pocket-Book WLS www.wisebridgelearning.com © 2006 J S Wetzel LEARNING STRATEGIES CONTENTS ● The key to building intuition is to develop the habit ALKANES of asking how each particular mechanism reflects Thermal Cracking - Pyrolysis . 1 general principles. Look for the concepts behind Combustion . 1 the chemistry to make organic chemistry more co- Free Radical Halogenation. 2 herent and rewarding. ALKENES Electrophilic Addition of HX to Alkenes . 3 ● Acid Catalyzed Hydration of Alkenes . 4 Exothermic reactions tend to follow pathways Electrophilic Addition of Halogens to Alkenes . 5 where like charges can separate or where un- Halohydrin Formation . 6 like charges can come together. When reading Free Radical Addition of HX to Alkenes . 7 organic chemistry mechanisms, keep the elec- Catalytic Hydrogenation of Alkenes. 8 tronegativities of the elements and their valence Oxidation of Alkenes to Vicinal Diols. 9 electron configurations always in your mind. Try Oxidative Cleavage of Alkenes . 10 to nterpret electron movement in terms of energy Ozonolysis of Alkenes . 10 Allylic Halogenation . 11 to make the reactions easier to understand and Oxymercuration-Demercuration . 13 remember. Hydroboration of Alkenes . 14 ALKYNES ● For MCAT preparation, pay special attention to Electrophilic Addition of HX to Alkynes . 15 Hydration of Alkynes. 15 reactions where the product hinges on regio- Free Radical Addition of HX to Alkynes . 16 and stereo-selectivity and reactions involving Electrophilic Halogenation of Alkynes. 16 resonant intermediates, which are special favor- Hydroboration of Alkynes . 17 ites of the test-writers. Catalytic Hydrogenation of Alkynes. 17 Reduction of Alkynes with Alkali Metal/Ammonia . 18 Formation and Use of Acetylide Anion Nucleophiles . -
Organoboranes in Organic Syntheses Including Suzuki Coupling Reaction
HETEROCYCLES, Vol. 80, No. 1, 2010 15 HETEROCYCLES, Vol. 80, No. 1, 2010, pp. 15 - 43. © The Japan Institute of Heterocyclic Chemistry DOI: 10.3987/COM-09-S(S)Summary ORGANOBORANES IN ORGANIC SYNTHESES INCLUDING SUZUKI COUPLING REACTION Akira Suzuki In 1962 I had a lively interest in Wacker reaction [the oxidation of ethylene to acetaldehyde in the presence of palladium chloride and cupric chloride (Angew. Chem. 1959, 71, 176)] and began a literature survey. One Saturday afternoon during that time, I went a bookstore in Sapporo to look at new chemistry books and found a red and black two-tone colored book on the shelf that did not look like a chemistry book. The book was "Hydroboration" written by Professor Herbert C. Brown of Purdue University. It seemed to be an interesting book, so, I bought it. This book changed the course of my career, and my fascination with the chemistry of hydroboration reaction and organoboron compounds thus prepared by hydroboration began after reading the book. I immediately wrote to Professor Brown requesting to work as a postdoctoral research fellow. At that time Professor Brown was at Heidelberg in Germany as a visiting professor. He kindly wrote me a letter of acceptance, and I began a study of the stereochemistry of hydroboration reaction at Purdue (1963-65). Through this work I came to understand hydroboration and the interesting characteristics of organoboranes. My family (wife and two small girls) and I had a very good time there and made good friends. Of course I enjoyed chemistry. After a stay of about two years at Purdue, I returned to Japan with my family at the end of March 1965. -
Stereochemistry of Alkanes and Cycloalkanes
STEREOCHEMISTRY OF ALKANES AND CYCLOALKANES CONFORMATIONAL ISOMERS 1 CONFORMATIONAL ISOMERS • Stereochemistry concerned with the 3-D aspects of molecules • Rotation is possible around C-C bonds in open- chain molecules • A conformation is one of the many possible arrangements of atoms caused by rotation about a single bond, and a specific conformation is called a conformer (conformational isomer). 2 SOME VOCABULARY • A staggered conformation is the conformation in which all groups on two adjacent carbons are as far from each other as possible. • An eclipsed conformation is the conformation in which all groups on two adjacent carbons are as close to each other as possible. • Dihedral angle is angle between the substituents on two adjacent carbons; changes with rotation around the C-C bond 3 MORE VOCABULARY • Angle strain is the strain caused by the deformation of a bond angle from its normal value. • Steric strain is the repulsive interaction caused by atoms attempting to occupy the same space. • Torsional strain is the repulsive interaction between two bonds as they rotate past each other. Torsional strain is responsible for the barrier to rotation around the C-C bond. The eclipsed from higher in energy than the staggered form. 4 CONFORMATION OF ETHANE • Conformation- Different arrangement of atoms resulting from bond rotation • Conformations can be represented in 2 ways: 5 TORSIONAL STRAIN • We do not observe perfectly free rotation • There is a barrier to rotation, and some conformers are more stable than others • Staggered- most stable: -
Chemical Kinetics HW1 (Kahn, 2010)
Chemical Kinetics HW1 (Kahn, 2010) Question 1. (6 pts) A reaction with stoichiometry A = P + 2Q was studied by monitoring the concentration of the reactant A as a function of time for eighteen minutes. The concentration determination method had a maximum error of 6 M. The following concentration profile was observed: Time (min) Conc (mM) 1 0.9850 2 0.8571 3 0.7482 4 0.6549 5 0.5885 6 0.5183 7 0.4667 8 0.4281 9 0.3864 10 0.3557 11 0.3259 12 0.3037 13 0.2706 14 0.2486 15 0.2355 16 0.2188 17 0.2111 18 0.1930 Determine the reaction order and calculate the rate constant for decomposition of A. What can be said about the mechanism or molecularity of this reaction? Question 2. (4 pts) Solve problem 2 on pg 31 in your textbook (House) using both linear and non-linear regression. Provide standard errors for the rate constant and half-life based on linear and non-linear fits. Below is the data set for your convenience: dataA = {{0, 0.5}, {10, 0.443}, {20,0.395}, {30,0.348}, {40,0.310}, {50,0.274}, {60,0.24}, {70,0.212}, {80,0.190}, {90,0.171}, {100,0.164}} Question 3. (3 pts) Solve problem 3 on pg 32 in your textbook (House). Question 4. (7 pts) The authors of the paper “Microsecond Folding of the Cold Shock Protein Measured by a Pressure-Jump Technique” suggest that the activated state of folding of CspB follows Hammond- type behavior. -
Syntheses and Eliminations of Cyclopentyl Derivatives David John Rausch Iowa State University
Iowa State University Capstones, Theses and Retrospective Theses and Dissertations Dissertations 1966 Syntheses and eliminations of cyclopentyl derivatives David John Rausch Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/rtd Part of the Organic Chemistry Commons Recommended Citation Rausch, David John, "Syntheses and eliminations of cyclopentyl derivatives " (1966). Retrospective Theses and Dissertations. 2875. https://lib.dr.iastate.edu/rtd/2875 This Dissertation is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Retrospective Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. This dissertation has been microfilmed exactly as received 66—6996 RAUSCH, David John, 1940- SYNTHESES AND ELIMINATIONS OF CYCLOPENTYL DERIVATIVES. Iowa State University of Science and Technology Ph.D., 1966 Chemistry, organic University Microfilms, Inc., Ann Arbor, Michigan SYNTHESES AND ELIMINATIONS OF CYCLOPENTYL DERIVATIVES by David John Rausch A Dissertation Submitted to the Graduate Faculty in Partial Fulfillment of The Requirements for the Degree of DOCTOR OF PHILOSOPHY Major Subject: Organic Chemistry Approved : Signature was redacted for privacy. Signature was redacted for privacy. Head of Major Department Signature was redacted for privacy. Iowa State University Of Science and Technology Ames, Iowa 1966 ii TABLE OF CONTENTS VITA INTRODUCTION HISTORICAL Conformation of Cyclopentanes Elimination Reactions RESULTS AND DISCUSSION Synthetic Elimination Reactions EXPERIMENTAL Preparation and Purification of Materials Procedures and Data for Beta Elimination Reactions SUMMARY LITERATURE CITED ACKNOWLEDGEMENTS iii VITA The author was born in Aurora, Illinois, on October 24, 1940, to Mr. -
Chemistry 301-301A - Hour Examination #3, December 11, 2003
Chemistry 301-301A - Hour Examination #3, December 11, 2003 “.....as we know, there are known unknowns; there are things we know we know. We also know there are known unknowns; that is to say we know there are some things we do not know. But there are also unknown unknowns - the ones we don't know we don't know.” Donald Rumsfeld (winner of a British award given to the worst mangler of the English language in 2003) “I know, a proof is a proof. What kind of a proof is a proof? A proof is a proof and when you have a good proof it's because it's proven." Jean Chrétien (hon. mention for the same award) 1[18 points] (a) Acid-catalyzed addition of water to 3-methyl-1-butene (1) results in formation of large amounts of a rearranged alcohol (2), in addition to the expected alcohol (3). Explain, with excellent arrow formalisms. H2O + H O+ 3 OH OH 1 3 2 (b) On the other hand hydroboration of 1, followed by oxidation, does not lead to any rearranged product. Only alcohol 4 is formed. Explain. Detailed mechanisms are not needed here, but a drawing of the transition state for the hydroboration step is. 1. BH3 OH 2. HOOH/HO – 1 4 (c) But there are some strange things that happen in hydroboration. For example when 2-methyl-2-butene (5) is hydroborated at high temperature, then treated with HOOH/HO–, alcohol 4 is still one of the products. Explain mechanistcally. Hint: at high temperature hydroboration is reversible. -
Course Material 2.Pdf
Reactive Intermediates Source: https://www.askiitians.com/iit-jee-chemistry/organic-chemistry/iupac- and-goc/reaction-intermediates/ Table of Content • Carbocations • Carbanions • Free Radicals • Carbenes • Arenium Ions • Benzynes Synthetic intermediate are stable products which are prepared, isolated and purified and subsequently used as starting materials in a synthetic sequence. Reactive intermediate, on the other hand, are short lived and their importance lies in the assignment of reaction mechanisms on the pathway from the starting substrate to stable products. These reactive intermediates are not isolated, but are detected by spectroscopic methods, or trapped chemically or their presence is confirmed by indirect evidence. • Carbocations Carbocations are the key intermediates in several reactions and particularly in nucleophilic substitution reactions. Structure of Carbocations : Generally, in the carbocations the positively charged carbon atom is bonded to three other atoms and has no nonbonding electrons. It is sp 2 hybridized with a planar structure and bond angles of about 120°. There is a + vacant unhybridized p orbital which in the case of CH 3 lies perpendicular to the plane of C—H bonds. Stability of Carbocations: There is an increase in carbocation stability with additional alkyl substitution. Thus one finds that addition of HX to three typical olefins decreases in the order (CH 3)2C=CH 2>CH 3—CH = CH 2 > CH 2 = CH 2. This is due to the relative stabilities of the carbocations formed in the rate determining step which in turn follows from the fact that the stability is increased by the electron releasing methyl group (+I), three such groups being more effective than two, and two more effective than one. -
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 -
Lecture Outline a Closer Look at Carbocation Stabilities and SN1/E1 Reaction Rates We Learned That an Important Factor in the SN
Lecture outline A closer look at carbocation stabilities and SN1/E1 reaction rates We learned that an important factor in the SN1/E1 reaction pathway is the stability of the carbocation intermediate. The more stable the carbocation, the faster the reaction. But how do we know anything about the stabilities of carbocations? After all, they are very unstable, high-energy species that can't be observed directly under ordinary reaction conditions. In protic solvents, carbocations typically survive only for picoseconds (1 ps - 10–12s). Much of what we know (or assume we know) about carbocation stabilities comes from measurements of the rates of reactions that form them, like the ionization of an alkyl halide in a polar solvent. The key to connecting reaction rates (kinetics) with the stability of high-energy intermediates (thermodynamics) is the Hammond postulate. The Hammond postulate says that if two consecutive structures on a reaction coordinate are similar in energy, they are also similar in structure. For example, in the SN1/E1 reactions, we know that the carbocation intermediate is much higher in energy than the alkyl halide reactant, so the transition state for the ionization step must lie closer in energy to the carbocation than the alkyl halide. The Hammond postulate says that the transition state should therefore resemble the carbocation in structure. So factors that stabilize the carbocation also stabilize the transition state leading to it. Here are two examples of rxn coordinate diagrams for the ionization step that are reasonable and unreasonable according to the Hammond postulate. We use the Hammond postulate frequently in making assumptions about the nature of transition states and how reaction rates should be influenced by structural features in the reactants or products. -
Spectroscopic and Photophysical Properties of the Trioxatriangulenium Carbocation and Its Interactions with Supramolecular Systems
View metadata,Downloaded citation and from similar orbit.dtu.dk papers on:at core.ac.uk May 03, 2019 brought to you by CORE provided by Online Research Database In Technology Spectroscopic and Photophysical Properties of the Trioxatriangulenium Carbocation and its Interactions with Supramolecular Systems Reynisson, Johannes Publication date: 2000 Document Version Publisher's PDF, also known as Version of record Link back to DTU Orbit Citation (APA): Reynisson, J. (2000). Spectroscopic and Photophysical Properties of the Trioxatriangulenium Carbocation and its Interactions with Supramolecular Systems. Roskilde: Risø National Laboratory. Denmark. Forskningscenter Risoe. Risoe-R, No. 1191(EN) General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. Users may download and print one copy of any publication from the public portal for the purpose of private study or research. You may not further distribute the material or use it for any profit-making activity or commercial gain You may freely distribute the URL identifying the publication in the public portal If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. Spectroscopic and Photophysical Properties of the Trioxatriangulenium Carbocation and its Interactions with Supramolecular Systems Jóhannes Reynisson OO O Risø National Laboratory, Roskilde, Denmark June 2000 1 Abstract Trioxatriangulenium (TOTA+, 4,8,12-trioxa-4,8,12,12c-tetrahydro- dibenzo[cd,mn]-pyrenylium) is a closed shell carbocation which is stable in its crystalline form and in polar solvents at ambient temperatures.