16-1 SECTION 16 RATES of REACTION and REACTION MECHANISM Chemical Kinetics
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Photoionization Studies of Reactive Intermediates Using Synchrotron
Photoionization Studies of Reactive Intermediates using Synchrotron Radiation by John M.Dyke* School of Chemistry University of Southampton SO17 1BJ UK *e-mail: [email protected] 1 Abstract Photoionization of reactive intermediates with synchrotron radiation has reached a sufficiently advanced stage of development that it can now contribute to a number of areas in gas-phase chemistry and physics. These include the detection and spectroscopic study of reactive intermediates produced by bimolecular reactions, photolysis, pyrolysis or discharge sources, and the monitoring of reactive intermediates in situ in environments such as flames. This review summarises advances in the study of reactive intermediates with synchrotron radiation using photoelectron spectroscopy (PES) and constant-ionic-state (CIS) methods with angular resolution, and threshold photoelectron spectroscopy (TPES), taking examples mainly from the recent work of the Southampton group. The aim is to focus on the main information to be obtained from the examples considered. As future research in this area also involves photoelectron-photoion coincidence (PEPICO) and threshold photoelectron-photoion coincidence (TPEPICO) spectroscopy, these methods are also described and previous related work on reactive intermediates with these techniques is summarised. The advantages of using PEPICO and TPEPICO to complement and extend TPES and angularly resolved PES and CIS studies on reactive intermediates are highlighted. 2 1.Introduction This review is organised as follows. After an Introduction to the study of reactive intermediates by photoionization with fixed energy photon sources and synchrotron radiation, a number of Case Studies are presented of the study of reactive intermediates with synchrotron radiation using angle resolved PES and CIS, and TPE spectroscopy. -
Fundamentals of Theoretical Organic Chemistry Lecture 9
Fund. Theor. Org. Chem 1 SE Fundamentals of Theoretical Organic Chemistry Lecture 9 1 Fund. Theor. Org. Chem 2 SE 2.2.2 Electrophilic substitution The reaction which takes place between a reactant with an electronegative carbon and an electropositive reagent forming a polarized covalent bond is called electrophilic. In addition, if substitution occurs (i.e. there is a similar polarized covalent bond on the electronegative carbon, which breaks up during the reaction, so the reagent „substitutes” the „old” group or the leaving group) then this specific reaction is called electrophilic substitution. The electronegative carbon is called the reaction centre. In general, the good reactant are molecules having electronegative carbons like aromatic compounds, alkenes and other compounds containing electron-rich double bonds. These are called Lewis bases. On the contrary, good electrophilic reagents are electron poor compounds/molecule groups like acid-halides, which easily form covalent bond with an electronegative centre, thus creating a new molecule. These are often referred to as Lewis acids. According to molecular orbital (MO) theory the driving force for the electrophilic substitution (SE) is a Lewis complex formation involving the LUMO of the Lewis Acid Reagent and the HOMO of the Lewis Base Reactant. Reactant Reagent LUMO LUMO HOMO Lewis base Lewis acid Lewis complex Types of reactions: There are four types of reactions as illustrated below: 2 Fund. Theor. Org. Chem 3 SE Table. 2.2.2-1. Saturated Aromatic SE1 SE1 (Ar) SE2 SE2 (Ar) SE reaction on saturated atom: (1)Unimolecular electrophilic substitution (SE1): The reaction proceeds in two steps. After the departure of the leaving group, the negatively charged reaction intermediate will combine with the reagent. -
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. -
Bsc Chemistry
Subject Chemistry Paper No and Title 05, ORGANIC CHEMISTRY-II (REACTION MECHANISM-I) Module No and Title 15, The Neighbouring Mechanism, Neighbouring Group Participation by π and σ Bonds Module Tag CHE_P5_M15 CHEMISTRY PAPER :5, ORGANIC CHEMISTRY-II (REACTION MECHANISM-I) MODULE: 15 , The Neighbouring Mechanism, Neighbouring Group Participation by π and σ Bonds TABLE OF CONTENTS 1. Learning Outcomes 2. Introduction 3. NGP Participation 3.1 NGP by Heteroatom Lone Pairs 3.2 NGP by alkene 3.3 NGP by Cyclopropane, Cyclobutane or a Homoallyl group 3.4 NGP by an Aromatic Ring 4. Neighbouring Group Participation on SN2 Reactions 5. Neighbouring Group Participation on SN1 Reactions 6. Neighbouring Group and Rearrangement 7. Examples 8. Summary CHEMISTRY PAPER :5, ORGANIC CHEMISTRY-II (REACTION MECHANISM-I) MODULE: 15 , The Neighbouring Mechanism, Neighbouring Group Participation by π and σ Bonds 1. Learning Outcomes After studying this module, you shall be able to Know about NGP reaction Learn reaction mechanism of NGP reaction Identify stereochemistry of NGP reaction Evaluate the factors affecting the NGP reaction Analyse Phenonium ion, NGP by alkene, and NGP by heteroatom. 2. Introduction The reaction centre (carbenium centre) has direct interaction with a lone pair of electrons of an atom or with the electrons of s- or p-bond present within the parent molecule but these are not in conjugation with the reaction centre. A distinction is sometimes made between n, s and p- participation. An increase in rate due to Neighbouring Group Participation (NGP) is known as "anchimeric assistance". "Synartetic acceleration" happens to be the special case of anchimeric assistance and applies to participation by electrons binding a substituent to a carbon atom in a β- position relative to the leaving group attached to the α-carbon atom. -
NEW TANDEM REACTIONS INVOLVING NUCLEOPHILIC AROMATIC SUBSTITUTION by JAMES ERVIN SCHAMMERHORN III Associates of Science Murray
NEW TANDEM REACTIONS INVOLVING NUCLEOPHILIC AROMATIC SUBSTITUTION By JAMES ERVIN SCHAMMERHORN III Associates of Science Murray State College Tishomingo, Oklahoma 2003 Bachelor of Science in Chemistry Oklahoma State University Stillwater, Oklahoma 2006 Submitted to the Faculty of the Graduate College of the Oklahoma State University in partial fulfillment of the requirements for the Degree of DOCTOR OF PHILOSOPHY May, 2011 1 NEW TANDEM REACTIONS INVOLVING NUCLEOPHILIC ARMOMATIC SUBSTITUTION Thesis Approved: Dr. Richard Bunce Thesis Adviser Dr. K. Darrell Berlin Dr. Ziad El-Rassi Dr. Nicholas Materer Dr. Andrew Mort Dr. Mark E. Payton Dean of the Graduate College ii ACKNOWLEDGMENTS I would like to express my sincere gratitude to Dr. R. A. Bunce, my research advisor, my graduate committee chairman and my friend. I have learned many valuable lessons working alongside him in his research laboratory. His ability to teach both organic theory and laboratory techniques have been instrumental in my research at Oklahoma State University. I am immensely thankful for his support, guidance and patience to me during the course of this research. His unique sense of humor always makes me laugh and makes it a joy to come to lab. I would also like to thank my committee members, Drs. K. D. Berlin, Z. El Rassi, N. F. Materer, and A. J. Mort their acceptance to be on my committee. Their insights into research and graduate life have been invaluable during my graduate career. I am especially grateful to Dr. Berlin for sharing his wealth of organic chemistry knowledge with me during the course of my research. Also, to Dr. -
Linking Chemical Reaction Intermediates of the Click Reaction to Their Molecular Diffusivity
1 Linking chemical reaction intermediates of the click reaction to their molecular diffusivity Tian Huang,a Bo Li,a Huan Wang,b* and Steve Granicka,c* a Center for Soft and Living Matter, Institute for Basic Science (IBS), Ulsan 44919, South Korea b College of Chemistry and Molecular Engineering, Peking University, Beijing, 100871, P. R. China c Departments of Chemistry and Physics, Ulsan National Institute of Science and Technology (UNIST), Ulsan 44919, South Korea Abstract Bipolar reactions have been provoked by reports of boosted diffusion during chemical and enzymatic reactions. To some, it is intuitively reasonable that relaxation to truly Brownian motion after passing an activation barrier can be slow, but to others the notion is so intuitively unphysical that they suspect the supporting experiments to be artifact. Here we study a chemical reaction according to whose mechanism some intermediate species should speed up while others slow down in predictable ways, if the boosted diffusion interpretation holds. Experimental artifacts would do not know organic chemistry mechanism, however. Accordingly, we scrutinize the absolute diffusion coefficient (D) during intermediate stages of the CuAAC reaction (copper- catalyzed azide-alkyne cycloaddition click reaction), using proton pulsed field-gradient nuclear magnetic resonance (PFG-NMR) to discriminate between the diffusion of various reaction intermediates. For the azide reactant, its D increases during reaction, peaks at the same time as peak reaction rate, then returns to its initial value. For the alkyne reagent, its D decreases consistent with presence of the intermediate large complexes formed from copper catalyst and its ligand, except for the 2Cu-alk complex whose more rapid D may signify that this species is the 2 real reactive complex. -
Reactions of Aromatic Compounds Just Like an Alkene, Benzene Has Clouds of Electrons Above and Below Its Sigma Bond Framework
Reactions of Aromatic Compounds Just like an alkene, benzene has clouds of electrons above and below its sigma bond framework. Although the electrons are in a stable aromatic system, they are still available for reaction with strong electrophiles. This generates a carbocation which is resonance stabilized (but not aromatic). This cation is called a sigma complex because the electrophile is joined to the benzene ring through a new sigma bond. The sigma complex (also called an arenium ion) is not aromatic since it contains an sp3 carbon (which disrupts the required loop of p orbitals). Ch17 Reactions of Aromatic Compounds (landscape).docx Page1 The loss of aromaticity required to form the sigma complex explains the highly endothermic nature of the first step. (That is why we require strong electrophiles for reaction). The sigma complex wishes to regain its aromaticity, and it may do so by either a reversal of the first step (i.e. regenerate the starting material) or by loss of the proton on the sp3 carbon (leading to a substitution product). When a reaction proceeds this way, it is electrophilic aromatic substitution. There are a wide variety of electrophiles that can be introduced into a benzene ring in this way, and so electrophilic aromatic substitution is a very important method for the synthesis of substituted aromatic compounds. Ch17 Reactions of Aromatic Compounds (landscape).docx Page2 Bromination of Benzene Bromination follows the same general mechanism for the electrophilic aromatic substitution (EAS). Bromine itself is not electrophilic enough to react with benzene. But the addition of a strong Lewis acid (electron pair acceptor), such as FeBr3, catalyses the reaction, and leads to the substitution product. -
Use Stable Isotopes to Investigate Microbial H2 and N2o Production
USE STABLE ISOTOPES TO INVESTIGATE MICROBIAL H2 AND N2O PRODUCTION By Hui Yang A DISSERTATION Submitted to Michigan State University in partial fulfillment of the requirements for the degree of Biochemistry and Molecular Biology - Doctor of Philosophy 2015 ABSTRACT USE STABLE ISOTOPES TO INVESTIGATE MICROBIAL H2 AND N2O PRODUCTION By Hui Yang Stable isotopes can be a useful tool in studying the basic processes involved in enzymatic catalysis. Isotope effects are quantifiable values related to the substitution of isotopes. It derives from the difference in zero-point energies. In contrast to non-catalyzed reactions, enzyme- catalyzed reactions involve multiple steps, the overall isotope effects are the sum of the isotope effects in each step. There are two major kinds of isotope effects, equilibrium isotope effects (EIEs) and kinetic isotope effects (KIEs). Each of them can provide us insights into different states in the reaction. This thesis describes several researches related to using the stable isotopes to study microbial metabolism. It is demonstrated in Chapter 2 that a method is developed for the measurement of H isotope fractionation patterns in hydrogenases. After the development of the method, a detailed study of the H2 metabolism catalyzed by different hydrogenases is presented in Chapter 3. The methods developed in hydrogenase studies were deployed in nitric oxide reductase-catalyzed N2O production studies, which is described in Chapter 4. TABLE OF CONTENTS LIST OF TABLES………………………………………………………………………………..vi LIST OF FIGURES……………………………………………………………………………...vii -
Catalytic Β-Functionalization of Carbonyl Compounds Enabled by Α
pubs.acs.org/acscatalysis Perspective Catalytic β‑Functionalization of Carbonyl Compounds Enabled by α,β-Desaturation Chengpeng Wang and Guangbin Dong* Cite This: ACS Catal. 2020, 10, 6058−6070 Read Online ACCESS Metrics & More Article Recommendations ABSTRACT: Capitalizing on versatile catalytic α,β-desaturation methods, strategies that directly functionalize carbonyl compounds at their less-reactive β-positions have emerged over the past decade. Depending on the reaction mechanism, general approaches include merging with conjugate addition, migratory coupling, and redox cascade. This perspective provides a summary of transition-metal-catalyzed α,β-desaturation methods and in-depth discussions of each β- functionalization strategy with their advantages, challenges, and future directions. KEYWORDS: β-functionalization, α,β-desaturation, carbonyl compound, conjugate addition, migratory coupling, redox cascade I. INTRODUCTION Scheme 1. Direct β-Functionalization of Carbonyl Compounds Preparation and derivatization of carbonyl compounds are cornerstones in organic synthesis. To date, rich chemistry has been developed to functionalize the ipso and α-positions of carbonyl compounds via nucleophilic addition to carbonyl carbons and enolate couplings with electrophiles.1 In contrast, direct functionalization at the β position has undoubtedly been a more challenging task, because the β-C−H bonds are significantly less acidic. To access β-functionalized carbonyl compounds, conventional methods mainly rely on conjugate addition of a nucleophile to an α,β-unsaturated carbonyl compound.2 In many cases, the α,β-unsaturated carbonyl compounds must be synthesized in one or a few steps from the 3 Downloaded via UNIV OF CHICAGO on May 19, 2021 at 13:46:31 (UTC). corresponding saturated ones via an oxidation process. -
Reactions of Alkenes and Alkynes
05 Reactions of Alkenes and Alkynes Polyethylene is the most widely used plastic, making up items such as packing foam, plastic bottles, and plastic utensils (top: © Jon Larson/iStockphoto; middle: GNL Media/Digital Vision/Getty Images, Inc.; bottom: © Lakhesis/iStockphoto). Inset: A model of ethylene. KEY QUESTIONS 5.1 What Are the Characteristic Reactions of Alkenes? 5.8 How Can Alkynes Be Reduced to Alkenes and 5.2 What Is a Reaction Mechanism? Alkanes? 5.3 What Are the Mechanisms of Electrophilic Additions HOW TO to Alkenes? 5.1 How to Draw Mechanisms 5.4 What Are Carbocation Rearrangements? 5.5 What Is Hydroboration–Oxidation of an Alkene? CHEMICAL CONNECTIONS 5.6 How Can an Alkene Be Reduced to an Alkane? 5A Catalytic Cracking and the Importance of Alkenes 5.7 How Can an Acetylide Anion Be Used to Create a New Carbon–Carbon Bond? IN THIS CHAPTER, we begin our systematic study of organic reactions and their mecha- nisms. Reaction mechanisms are step-by-step descriptions of how reactions proceed and are one of the most important unifying concepts in organic chemistry. We use the reactions of alkenes as the vehicle to introduce this concept. 129 130 CHAPTER 5 Reactions of Alkenes and Alkynes 5.1 What Are the Characteristic Reactions of Alkenes? The most characteristic reaction of alkenes is addition to the carbon–carbon double bond in such a way that the pi bond is broken and, in its place, sigma bonds are formed to two new atoms or groups of atoms. Several examples of reactions at the carbon–carbon double bond are shown in Table 5.1, along with the descriptive name(s) associated with each. -
UNIT-III: Mechanistic and Sterochemical Aspects of Addition Reaction Involving Electrophiles & Nucleophiles
MCH-204:ORGANIC CHEMISTRY UNIT-III: Mechanistic and sterochemical aspects of addition reaction Involving electrophiles & nucleophiles Prof.Anand Halve S.O.S in Chemistry Jiwaji University Gwalior ELECTROPHILIC ADDITION REACTIONS markovnikov’ additions markovnikov’s rule Addition of hydrogen to an unsymmetrical olefin occurs at those carbon atoms with maximum number of hydrogen atoms. (i.e., the carbon with least substitution). Electronegative group goes to more substituted carbon atom. Such an addition leads to a stabler carbocation. Such a reaction may lead to constitutional isomers but actually one of the products is formed as major product. X X Formed H HX X=F, Cl. X Olefin Not formed origin … X HX X X=F, Cl . carbocation is more stablised in T.S. Stereo specific product H X X carbocation is not enough stablilised in transition state Olefin Consider two possible sites for hydrogen addition (i) terminal or (ii) internal (substituted carbon). The addition of hydrogen at the terminal carbon leads to better stabilization of carbocation, the chances of stabilization increases with increase in conjugation with olefin. The terminal carbocation require higher activation energy which is not a favorable condition, leading to slower reaction rate. However, the generation of non terminal carbocation is assisted by hyperconjugative stabilization leading to a lower activation energy. Alkenes-some facts Due to trigonal planar geometry of olefin carbon atoms the addition can occur on the same side (syn periplanar) or on opposite sides (anti periplanar). Alkenes are generally nucleophilic. The C=C double bond provides a higher energy HOMO (highest occupied molecular orbitals). Electron donating groups increase the rate for electrophilic attack as they assist in carbocation and positive charge stabilization in the TS. -
20 More About Oxidation–Reduction Reactions
More About 20 Oxidation–Reduction Reactions OOC n important group of organic reactions consists of those that O A involve the transfer of electrons C from one molecule to another. Organic chemists H OH use these reactions—called oxidation–reduction reactions or redox reactions—to synthesize a large O variety of compounds. Redox reactions are also important C in biological systems because many of these reactions produce HH energy. You have seen a number of oxidation and reduction reactions in other chapters, but discussing them as a group will give you the opportunity to CH3OH compare them. In an oxidation–reduction reaction, one compound loses electrons and one com- pound gains electrons. The compound that loses electrons is oxidized, and the one that gains electrons is reduced. One way to remember the difference between oxidation and reduction is with the phrase “LEO the lion says GER”: Loss of Electrons is Oxi- dation; Gain of Electrons is Reduction. The following is an example of an oxidation–reduction reaction involving inorganic reagents: Cu+ + Fe3+ ¡ Cu2+ + Fe2+ In this reaction,Cu+ loses an electron, so Cu+ is oxidized. Fe3+ gains an electron, so Fe3+ is reduced. The reaction demonstrates two important points about oxidation– reduction reactions. First, oxidation is always coupled with reduction. In other words, a compound cannot gain electrons (be reduced) unless another compound in the reaction simultaneously loses electrons (is oxidized). Second, the compound that is oxidized (Cu+) is called the reducing agent because it loses the electrons that are used to reduce the other compound (Fe3+). Similarly, the compound that is reduced (Fe3+) is called the oxidizing agent because it gains the electrons given up by the other compound (Cu+) when it is oxidized.