Aromaticity & Electrophilic/Nucleophilic Aromatic Substitution
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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 . -
Solvent Effects on Structure and Reaction Mechanism: a Theoretical Study of [2 + 2] Polar Cycloaddition Between Ketene and Imine
J. Phys. Chem. B 1998, 102, 7877-7881 7877 Solvent Effects on Structure and Reaction Mechanism: A Theoretical Study of [2 + 2] Polar Cycloaddition between Ketene and Imine Thanh N. Truong Henry Eyring Center for Theoretical Chemistry, Department of Chemistry, UniVersity of Utah, Salt Lake City, Utah 84112 ReceiVed: March 25, 1998; In Final Form: July 17, 1998 The effects of aqueous solvent on structures and mechanism of the [2 + 2] cycloaddition between ketene and imine were investigated by using correlated MP2 and MP4 levels of ab initio molecular orbital theory in conjunction with the dielectric continuum Generalized Conductor-like Screening Model (GCOSMO) for solvation. We found that reactions in the gas phase and in aqueous solution have very different topology on the free energy surfaces but have similar characteristic motion along the reaction coordinate. First, it involves formation of a planar trans-conformation zwitterionic complex, then a rotation of the two moieties to form the cycloaddition product. Aqueous solvent significantly stabilizes the zwitterionic complex, consequently changing the topology of the free energy surface from a gas-phase single barrier (one-step) process to a double barrier (two-step) one with a stable intermediate. Electrostatic solvent-solute interaction was found to be the dominant factor in lowering the activation energy by 4.5 kcal/mol. The present calculated results are consistent with previous experimental data. Introduction Lim and Jorgensen have also carried out free energy perturbation (FEP) theory simulations with accurate force field that includes + [2 2] cycloaddition reactions are useful synthetic routes to solute polarization effects and found even much larger solvent - formation of four-membered rings. -
Chapter 1 Tropone and Tropolone
School of Molecular and Life Sciences New Routes to Troponoid Natural Products Jason Matthew Wells This thesis is presented for the Degree of Doctor of Philosophy of Curtin University November 2018 Declaration To the best of my knowledge and belief this thesis contains no material previously pub- lished by any other person except where due acknowledgement has been made. This thesis contains no material which has been accepted for the award of any other degree or diploma in any other university. Signature: Date: i Abstract Malaria is an infectious disease found in humans and other animals, it is caused by a single-cell parasite of the Plasmodium genus with many different substrains. Of these, P. falciparum is the most deadly to humans causing the majority of deaths. Although research into the area of antimalarial compounds is wide spread, few have been devel- oped with new structural features. Cordytropolone 37 is a natural product isolated in 2001 from the insect pathogenic fungus Cordyceps sp. BCC 1681 and has been shown to have antimalarial activity against P. falciparum. It has a structure unrelated to antimalarial com- pounds currently used in therapy. It does not contain a peroxide bridge as with artemisinin 25 or quinoline rings as with chloroquine 22. This unique structure indicates that it could possibly interact with the malaria parasite in a fashion unlike current treatments. In order for cordytropolone to be further developed as a potential treatment, it must first be synthe- sised in a laboratory environment. This study attempts to develop the first total synthesis of cordytropolone. H HO O N O O N O N H H H O O Cl HO O 22 25 37 Figure 0.0.1: Cordytropolone 37 has a unique structure compared to the current common malaria treatments The first method investigated towards the total synthesis of cordytropolone involved an intramolecular Buchner ring expansion. -
1,3,5-Triazine As Core for the Preparation of Dendrons
The Free Internet Journal Paper for Organic Chemistry Archive for Arkivoc 2020, part iii, 0-0 Organic Chemistry to be inserted by editorial office 1,3,5-Triazine as core for the preparation of dendrons Rotimi Sheyi,a Anamika Sharma,a,b Ashish Kumar,a,b Ayman El-Faham,c,d Beatriz G. de la Torre,b,* and Fernando Albericioa,c,e,f* aPeptide Science Laboratory, School of Chemistry and Physics, University of KwaZulu-Natal, Durban 4001, South Africa bKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban 4041, South Africa cDepartment of Chemistry, College of Science, King Saud University, PO Box 2455, Riyadh 11451, Saudi Arabia dDepartment of Chemistry, Faculty of Science, Alexandria University, PO Box 426, Alexandria 21321, Egypt eInstitute for Advanced Chemistry of Catalonia (IQAC-CSIC), 08034 Barcelona, Spain fCIBER-BBN (Networking Centre on Bioengineering, Biomaterials and Nanomedicine) and Department of Organic Chemistry, University of Barcelona, 08028 Barcelona, Spain *Corresponding authors. email: [email protected]; [email protected] Received mm-dd-yyyy Accepted mm-dd-yyyy Published on line mm-dd-yyyy Dates to be inserted by editorial office Abstract A unique property of 2,4,6-trichloro-1,3,5-triazine (TCT) is its ability to undergoes a nucleophilic aromatic substitution reaction (SNAr) under temperature-controlled conditions. Using a convenient and biologically friendly protocol, mono-substituted s-triazines were treated with excess nucleophiles to obtain tri-substituted triazines in 1 + 2 mode (one nucleophile as the first substitution followed by another nucleophile for the other two positions). -
S-Triazine: a Privileged Structure for Drug Discovery and Bioconjugation
molecules Review s-Triazine: A Privileged Structure for Drug Discovery and Bioconjugation Anamika Sharma 1,2 , Rotimi Sheyi 1, Beatriz G. de la Torre 1,2 , Ayman El-Faham 3,4,* and Fernando Albericio 1,3,5,6,* 1 Peptide Science Laboratory, School of Chemistry and Physics, University of KwaZulu-Natal, Durban 4001, South Africa; [email protected] (A.S.); [email protected] (R.S.); [email protected] (B.G.d.l.T.) 2 KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal, Durban 4041, South Africa 3 Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia 4 Chemistry Department, Faculty of Science, Alexandria University, P.O. Box 426, Ibrahimia, Alexandria 12321, Egypt 5 Institute for Advanced Chemistry of Catalonia (IQAC-CSIC), 08034 Barcelona, Spain 6 CIBER-BBN (Networking Centre on Bioengineering, Biomaterials and Nanomedicine) and Department of Organic Chemistry, University of Barcelona, 08028 Barcelona, Spain * Correspondence: [email protected] (A.E.-F.); [email protected] (F.A.) Abstract: This review provides an overview of the broad applicability of s-triazine. Our many years working with this intriguing moiety allow us to discuss its wide activity spectrum (inhibition against MAO-A and -B, anticancer/antiproliferative and antimicrobial activity, antibacterial activity against MDR clinical isolates, antileishmanial agent, and use as drug nano delivery system). Most Citation: Sharma, A.; Sheyi, R.; of the compounds addressed in our studies and those performed by other groups contain only de la Torre, B.G.; El-Faham, A.; N-substitution. -
Synthetic Routes Towards Thiazolo[1,3,5]Triazines (Review)1
HETEROCYCLES, Vol. , No. , , pp. -. © The Japan Institute of Heterocyclic Chemistry Received, , Accepted, , Published online, . COM-06- (Please do not delete.) SYNTHETIC ROUTES TOWARDS THIAZOLO[1,3,5]TRIAZINES (REVIEW)1 Anton V. Dolzhenko School of Pharmacy, Curtin University of Technology, GPO Box U1987, Perth, Western Australia 6845, Australia, E-mails: [email protected]; [email protected] Abstract – The present review summarizes information on the synthetic approaches to thiazolo[3,2-a][1,3,5]triazines and polyfused systems bearing this heterocyclic core since the first report on this structure in 1887. The methods allowing access to the heterocyclic systems comprising isomeric thiazolo[3,4-a][1,3,5]triazine scaffold are also included in the review. Data concerning potential applications of the thiazolo[1,3,5]triazines, particularly as biologically active agents are discussed. Dedicated to Professor Viktor E. Kolla with my best wishes on the occasion of his 85th birthday CONTENTS 1. INTRODUCTION 2. SYNTHESIS OF THIAZOLO[3,2-a][1,3,5]TRIAZINES AND THEIR POLYFUSED ANALOGUES 2.1. Synthesis of thiazolo[3,2-a][1,3,5]triazines by annelation of the 1,3,5-triazine ring onto a thiazole scaffold. 2.1.1. Synthesis of thiazolo[3,2-a][1,3,5]triazines using Mannich condensation. 2.1.2. Synthesis of thiazolo[3,2-a][1,3,5]triazines using multicomponent reactions of thiazole derivatives with heterocumulenes. 2.1.3. Synthesis of thiazolo[3,2-a][1,3,5]triazines using other multicomponent reactions of 2-aminothiazoles and their derivatives. 2.1.4. Synthesis of thiazolo[3,2-a][1,3,5]triazines via reactions of 2-aminothiazoles with C-N-C triatomic synthons. -
Mass Spectrometry : Apparatus
Mass – Spectrometry Mass spectrometry : Apparatus Mass spectrometry :Aparatus MASS Spectrum of acetophenone Fragment Ions Molecular ion (mass ion) MASS Spectrum of Benzamide Mass spectrometry: Processing steps of the sample 1. Ionization of molecules 2. Fragmentation of ionized molecules 3. Acceleration of ions 4. Analysys of the ions Resolution of mass spectrometer 푀 푀푛 10001 푅 = = = = 10000 Δ푀 푀푛−푀푚 10001−10000 M m Mn H ℎ ∗ 100 ≤ 10 % 퐻 Ion sources • 1. Electron ionization (EI) (Electron Impact) • 2. Chemical Ionization (CI) • 3. Fast Atom Bombardment (FAB) • 4. Laser Desorption (LD) • 5. Matrix-Assisted Laser Desorption Ionization (MALDI) • 6. ElectroSpray ionization (ESI) Electron Ionization (EI) – Ionization Chamber Electron Ionization (EI) What is going on physically? Electron Ionization - Energy of electrons Each electron is associated to a wave whose wavelength λ is given by ℎ λ = 푚 υ where m is its mass, v its velocity and h Planck’s constant. Wavelength is 2.7Å for a kinetic energy of 20 eV and 1.4 Å for 70 eV. Number of ions produced as a function of the electron energy. Advantages of EI 1. Reproducible method 2. High Ionization Efficiency 3. All vaporized molecules can be ionized (non polar and insoluble) 4. Molecular structural information (fragmentation) Disadvantages of EI 1. Only +ve ions are formed 2. Sample has to be volatile 3. Limits to 600Da or less MW 4. Extensive fragmentation Chemical Ionization (CI) 1. Sample is injected in atmosfere of gas (methane, izobutane, ammonia). 2. Gas is ionised by EI method. 3. During the collisions of methane ions with molecules of sample, energy is ransfered, as well as protons is transfered. -
The Arene–Alkene Photocycloaddition
The arene–alkene photocycloaddition Ursula Streit and Christian G. Bochet* Review Open Access Address: Beilstein J. Org. Chem. 2011, 7, 525–542. Department of Chemistry, University of Fribourg, Chemin du Musée 9, doi:10.3762/bjoc.7.61 CH-1700 Fribourg, Switzerland Received: 07 January 2011 Email: Accepted: 23 March 2011 Ursula Streit - [email protected]; Christian G. Bochet* - Published: 28 April 2011 [email protected] This article is part of the Thematic Series "Photocycloadditions and * Corresponding author photorearrangements". Keywords: Guest Editor: A. G. Griesbeck benzene derivatives; cycloadditions; Diels–Alder; photochemistry © 2011 Streit and Bochet; licensee Beilstein-Institut. License and terms: see end of document. Abstract In the presence of an alkene, three different modes of photocycloaddition with benzene derivatives can occur; the [2 + 2] or ortho, the [3 + 2] or meta, and the [4 + 2] or para photocycloaddition. This short review aims to demonstrate the synthetic power of these photocycloadditions. Introduction Photocycloadditions occur in a variety of modes [1]. The best In the presence of an alkene, three different modes of photo- known representatives are undoubtedly the [2 + 2] photocyclo- cycloaddition with benzene derivatives can occur, viz. the addition, forming either cyclobutanes or four-membered hetero- [2 + 2] or ortho, the [3 + 2] or meta, and the [4 + 2] or para cycles (as in the Paternò–Büchi reaction), whilst excited-state photocycloaddition (Scheme 2). The descriptors ortho, meta [4 + 4] cycloadditions can also occur to afford cyclooctadiene and para only indicate the connectivity to the aromatic ring, and compounds. On the other hand, the well-known thermal [4 + 2] do not have any implication with regard to the reaction mecha- cycloaddition (Diels–Alder reaction) is only very rarely nism. -
Predictive Models for Kinetic Parameters of Cycloaddition
Predictive Models for Kinetic Parameters of Cycloaddition Reactions Marta Glavatskikh, Timur Madzhidov, Dragos Horvath, Ramil Nugmanov, Timur Gimadiev, Daria Malakhova, Gilles Marcou, Alexandre Varnek To cite this version: Marta Glavatskikh, Timur Madzhidov, Dragos Horvath, Ramil Nugmanov, Timur Gimadiev, et al.. Predictive Models for Kinetic Parameters of Cycloaddition Reactions. Molecular Informatics, Wiley- VCH, 2018, 38 (1-2), pp.1800077. 10.1002/minf.201800077. hal-02346844 HAL Id: hal-02346844 https://hal.archives-ouvertes.fr/hal-02346844 Submitted on 5 Feb 2021 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. 0DQXVFULSW &OLFNKHUHWRGRZQORDG0DQXVFULSW&$UHYLVLRQGRF[ Predictive models for kinetic parameters of cycloaddition reactions Marta Glavatskikh[a,b], Timur Madzhidov[b], Dragos Horvath[a], Ramil Nugmanov[b], Timur Gimadiev[a,b], Daria Malakhova[b], Gilles Marcou[a] and Alexandre Varnek*[a] [a] Laboratoire de Chémoinformatique, UMR 7140 CNRS, Université de Strasbourg, 1, rue Blaise Pascal, 67000 Strasbourg, France; [b] Laboratory of Chemoinformatics and Molecular Modeling, Butlerov Institute of Chemistry, Kazan Federal University, Kremlyovskaya str. 18, Kazan, Russia Abstract This paper reports SVR (Support Vector Regression) and GTM (Generative Topographic Mapping) modeling of three kinetic properties of cycloaddition reactions: rate constant (logk), activation energy (Ea) and pre-exponential factor (logA). -
Aromatic Substitution Reactions: an Overview
Review Article Published: 03 Feb, 2020 SF Journal of Pharmaceutical and Analytical Chemistry Aromatic Substitution Reactions: An Overview Kapoor Y1 and Kumar K1,2* 1School of Pharmaceutical Sciences, Apeejay Stya University, Sohna-Palwal Road, Sohna, Gurgaon, Haryana, India 2School of Pharmacy and Technology Management, SVKM’s NMIMS University, Hyderabad, Telangana, India Abstract The introduction or replacement of substituent’s on aromatic rings by substitution reactions is one of the most fundamental transformations in organic chemistry. On the basis of the reaction mechanism, these substitution reactions can be divided into electrophilic, nucleophilic, radical, and transition metal catalyzed. This article also focuses on electrophilic and nucleophilic substitution mechanisms. Introduction The replacement of an atom, generally hydrogen, or a group attached to the carbon from the benzene ring by another group is known as aromatic substitution. The regioselectivity of these reactions depends upon the nature of the existing substituent and can be ortho, Meta or Para selective. Electrophilic Aromatic Substitution (EAS) reactions are important for synthetic purposes and are also among the most thoroughly studied classes of organic reactions from a mechanistic point of view. A wide variety of electrophiles can effect aromatic substitution. Usually, it is a substitution of some other group for hydrogen that is of interest, but this is not always the case. For example, both silicon and mercury substituent’s can be replaced by electrophiles. The reactivity of a particular electrophile determines which aromatic compounds can be successfully substituted. Despite the wide range of electrophilic species and aromatic ring systems that can undergo substitution, a single broad mechanistic picture encompasses most EAS reactions. -
Sc-Homoaromaticity
This is a repository copy of Modern Valence-Bond Description of Homoaromaticity. White Rose Research Online URL for this paper: https://eprints.whiterose.ac.uk/106288/ Version: Accepted Version Article: Karadakov, Peter Borislavov orcid.org/0000-0002-2673-6804 and Cooper, David L. (2016) Modern Valence-Bond Description of Homoaromaticity. Journal of Physical Chemistry A. pp. 8769-8779. ISSN 1089-5639 https://doi.org/10.1021/acs.jpca.6b09426 Reuse Items deposited in White Rose Research Online are protected by copyright, with all rights reserved unless indicated otherwise. They may be downloaded and/or printed for private study, or other acts as permitted by national copyright laws. The publisher or other rights holders may allow further reproduction and re-use of the full text version. This is indicated by the licence information on the White Rose Research Online record for the item. Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ Modern Valence-Bond Description of Homoaromaticity Peter B. Karadakov; and David L. Cooper; Department of Chemistry, University of York, Heslington, York, YO10 5DD, U.K. Department of Chemistry, University of Liverpool, Liverpool L69 7ZD, U.K. Abstract Spin-coupled (SC) theory is used to obtain modern valence-bond (VB) descriptions of the electronic structures of local minimum and transition state geometries of three species that have been con- C sidered to exhibit homoconjugation and homoaromaticity: the homotropenylium ion, C8H9 , the C cycloheptatriene neutral ring, C7H8, and the 1,3-bishomotropenylium ion, C9H11. -
Non-Empirical Calculations on the Electronic Structure of Olefins and Aromatics
NON-EMPIRICAL CALCULATIONS ON THE ELECTRONIC STRUCTURE OF OLEFINS AND AROMATICS by Robert H. Findlay, B.Sc. Thesis presented for the Degree of Doctor of philosophy University of Edinburgh December 1973 U N /),, cb CIV 3 ACKNOWLEDGEMENTS I Wish to express my gratitude to Dr. M.H. Palmer for his advice and encouragement during this period of study. I should also like to thank Professor J.I.G. Cadogan and Professor N. Campbell for the provision of facilities, and the Carnegie Institute for the Universities of Scotland for a Research Scholarship. SUMMARY Non-empirical, self-consistent field, molecular orbital calculations, with the atomic orbitals represented by linear combinations of Gaussian-type functions have been carried out on the ground state electronic structures of some nitrogen-, oxygen-, sulphur- and phosphorus-containing heterocycles. Some olefins and olefin derivatives have also been studied. Calculated values of properties have been compared with the appropriate experimental quantities, and in most cases the agreement is good, with linear relationships being established; these are found to have very small standard deviations. Extensions to molecules for which there is no experimental data have been made. In many cases it has been iôtrnd possible to relate the molecular orbitals to the simplest member of a series, or to the hydrocarbon analogue. Predictions of the preferred geometry of selected molecules have been made; these have been used to predict inversion barriers and reaction mechanisms. / / The extent of d-orbital participation in molecules containing second row atoms has been investigated and found to be of trivial importance except in molecules containing high valence states of the second row atoms.