Photochemistry and Pericyclic Reactions: Study Material
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UCLA Electronic Theses and Dissertations
UCLA UCLA Electronic Theses and Dissertations Title Computational Studies on the Reactivity, Selectivity and Molecular Dynamics of Cycloaddition Reactions Permalink https://escholarship.org/uc/item/1jk894mq Author Yu, Peiyuan Publication Date 2017 Peer reviewed|Thesis/dissertation eScholarship.org Powered by the California Digital Library University of California UNIVERSITY OF CALIFORNIA Los Angeles Computational Studies on the Reactivity, Selectivity and Molecular Dynamics of Cycloaddition Reactions A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Chemistry by Peiyuan Yu 2017 © Copyright by Peiyuan Yu 2017 ABSTRACT OF THE DISSERTATION Computational Studies on the Reactivity, Selectivity and Molecular Dynamics of Cycloaddition Reactions by Peiyuan Yu Doctor of Philosophy in Chemistry University of California, Los Angeles, 2017 Professor Kendall N. Houk, Chair The first part of this dissertation describes computational studies of higher-order cycloadditions with a focus on elucidating the origins of periselectivity. These reactions involve ambimodal transition states (TS) and bifurcations of potential energy surface. Chapter 1 describes density functional theory (DFT) studies of a transannular [6+4] cycloaddition proposed in the biosynthesis of heronamide A, in which an unbridged 10- membered ring is formed. Ring and steric strains are found to be essential in controlling the product stability that makes this reaction feasible. Chapter 2 presents an Environment-Perturbed Transition State Sampling method to explore the mechanism of the enzyme SpnF-catalyzed Diels–Alder. A [6+4] cycloaddition is also involved and enzyme enhances the formation of [4+2] product, with respect to the counterparts in the gas phase and in water. Chapter 3 explores the mechanisms and selectivities of the cycloadditions of tropone to dimethylfulvene discovered ii in 1967 by Houk. -
11 Concerted Pericyclic Reactions
11 Concerted Pericyclic Reactions Introduction There are many reactions in organic chemistry that give no evidence of involving intermediates when subjected to the usual probes for studying reaction mechanisms. Highly polar transition states do not seem to be involved either,since the rates of the reactions are often insensitive to solvent polarity. Efforts to detect free-radical intermedi- ates in these reactions by spectroscopic or chemical means have not been successful,and the reaction rates are neither increased by initiators nor decreased by inhibitors of free- radical reactions. This absence of evidence of intermediates leads to the conclusion that the reactions are single-step processes in which bond making and bond breaking both contribute to the structure at the transition state,although not necessarily to the same degree. Such processes are called concerted reactions. There are numerous examples of both unimolecular and bimolecular concerted reactions. An important group of concerted reactions are the concerted pericyclic reactions.1 A pericyclic reaction is characterized as a change in bonding relationship that takes place as a continuous concerted reorganization of electrons. The word ``concerted'' speci®es that there is a single transition state and that there are no intermediates in the process. To maintain continuous electron ¯ow,pericyclic reactions must occur through cyclic transi- tion states. Furthermore,the cyclic transition state must correspond to an arrangement of the participating orbitals that can maintain a bonding interaction between the reacting atoms throughout the course of the reaction. We shall see shortly that these requirements make pericyclic reaction highly predictable in terms of such features as relative reactivity, stereospeci®city,and regioselectivity. -
Design, Synthesis, and Biological Evaluation of Folate Targeted Photosensitizers for Photodynamic Therapy
Loyola University Chicago Loyola eCommons Dissertations Theses and Dissertations 2015 Design, Synthesis, and Biological Evaluation of Folate Targeted Photosensitizers for Photodynamic Therapy Laura Jean Donahue Loyola University Chicago Follow this and additional works at: https://ecommons.luc.edu/luc_diss Part of the Chemistry Commons Recommended Citation Donahue, Laura Jean, "Design, Synthesis, and Biological Evaluation of Folate Targeted Photosensitizers for Photodynamic Therapy" (2015). Dissertations. 1940. https://ecommons.luc.edu/luc_diss/1940 This Dissertation is brought to you for free and open access by the Theses and Dissertations at Loyola eCommons. It has been accepted for inclusion in Dissertations by an authorized administrator of Loyola eCommons. For more information, please contact [email protected]. This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 3.0 License. Copyright © 2015 Laura Jean Donahue LOYOLA UNIVERSITY CHICAGO DESIGN, SYNTHESIS, AND BIOLOGICAL EVALUATION OF FOLATE TARGETED PHOTOSENSITIZERS FOR PHOTODYNAMIC THERAPY A DISSERTATION SUBMITTED TO THE FACULTY OF THE GRADUATE SCHOOL IN CANDIDACY FOR THE DEGREE OF DOCTOR OF PHILOSOPHY PROGRAM IN CHEMISTRY BY LAURA J. DONAHUE CHICAGO, IL AUGUST 2015 Copyright by Laura J. Donahue, 2015 All rights reserved. ACKNOWLEDGMENTS I would like to acknowledge my research advisor, Dr. David Crumrine, for all of his guidance, patience, and support throughout my years of graduate work. I would also like to thank the members of my dissertation committee, Dr. James Babler, Dr. Ken Olsen, Dr. Martina Schmeling, and Dr. Stefan Kanzok for their continued guidance, support, and participation as members of my committee. I would like to thank other graduate students at Loyola who have been of assistance to me, in particular, Jeff Trautmann, Matthew Reichert, Brian Leverson, Cory Reidl, and RoJenia Jones. -
Photosensitisers - the Progression from Photodynamic Therapy to Anti-Infective Surfaces
Photosensitisers - the progression from photodynamic therapy to anti-infective surfaces Craig, R. A., McCoy, C. P., Gorman, S. P., & Jones, D. S. (2015). Photosensitisers - the progression from photodynamic therapy to anti-infective surfaces. Expert Opinion on Drug Delivery, 12(1), 85-101. DOI: 10.1517/17425247.2015.962512 Published in: Expert Opinion on Drug Delivery Document Version: Peer reviewed version Queen's University Belfast - Research Portal: Link to publication record in Queen's University Belfast Research Portal Publisher rights Copyright 2014 Informa Healthcare. General rights Copyright for the publications made accessible via the Queen's University Belfast Research Portal is retained by the author(s) and / or other copyright owners and it is a condition of accessing these publications that users recognise and abide by the legal requirements associated with these rights. Take down policy The Research Portal is Queen's institutional repository that provides access to Queen's research output. Every effort has been made to ensure that content in the Research Portal does not infringe any person's rights, or applicable UK laws. If you discover content in the Research Portal that you believe breaches copyright or violates any law, please contact [email protected]. Download date:15. Feb. 2017 Photosensitisers – the progression from photodynamic therapy to anti-infective surfaces Rebecca A. Craig, Colin P. McCoy*, Sean P. Gorman, David S. Jones Queen’s University Belfast, School of Pharmacy, 97 Lisburn Road, Belfast, BT9 7BL, UK * Corresponding author. E-mail: [email protected] Tel: +44 28 9097 2081 Fax: +44 28 9024 7794 Keywords: Photosensitiser, photodynamic therapy, antimicrobial, surfaces, reactive oxygen species Abstract Introduction: The application of light as a stimulus in pharmaceutical systems and the associated ability to provide precise spatiotemporal control over location, wavelength and intensity, allowing ease of external control independent of environmental conditionals, has led to its increased use. -
Pericyclic Reactions Notes
- 1 - PERICYCLIC REACTIONS NOTES Pericyclic reactions cannot be treated adequately by “curly-arrow” formalisms and a knowledge of molecular orbital theory is crucial to their understanding. They are reactions in which “all first order changes in bonding relationships takes place in concert on a closed curve” (Woodward & Hoffmann). More simply, the term “pericyclic” covers all concerted reactions involving a cyclic flow of electrons through a single transition state. Pericyclic reactions can be predicted and controlled to a great degree, which makes them very useful in synthesis. There are broadly four classes of pericyclic reaction: Sigmatropic – These are unimolecular isomerisations, and involve the movement of a σ-bond from one position to another. An illustration would be the first step of the Claisen Rearrangement: Note the nomenclature of this reaction, being described as a [i,j] shift. For example, this following is a [1,7] shift: Electrocyclic – These are unimolecular. They are characterised by ring opening or closing with a σ- bond forming at one end. Ring closing is more common, since this is formation of a σ-bond at the expense of a π-bond, but ring strain can lead to opening. Two examples are: Cycloaddition – This is the largest class of pericyclic reaction. It is characterised by two fragments coming together to form two new σ-bonds in a ring. Some examples are Diels-Alder and Ozonolysis reactions, which are described below. Chelotropic reactions are a specific type of cycloaddition, where the two bonds are made or broken at the same atom. The classic example of this is carbene addition to a double bond. -
Using Singlet Oxygen to Synthesize Natural Products and Drugs † ‡ † ‡ Ashwini A
Review pubs.acs.org/CR Using Singlet Oxygen to Synthesize Natural Products and Drugs † ‡ † ‡ Ashwini A. Ghogare , and Alexander Greer*, , † Department of Chemistry, Brooklyn College, 2900 Bedford Avenue, Brooklyn, New York 11210, United States ‡ Ph.D. Program in Chemistry, The Graduate Center of the City University of New York, 365 Fifth Avenue, New York, New York 10016, United States 1 ABSTRACT: This Review describes singlet oxygen ( O2) in the organic synthesis of 1 1 targets on possible O2 biosynthetic routes. The visible-light sensitized production of O2 is not only useful for synthesis; it is extremely common in nature. This Review is intended to draw a logical link between flow and batch reactionsa combination that leads to the 1 current state of O2 in synthesis. CONTENTS 5.5.1. Bubbling Photoreactor Using a Dissolved Sensitizer 10022 1. INTRODUCTION 9994 5.5.2. Bubbling Photoreactor Using a 2. BACKGROUND 9994 “Shielded” Heterogeneous Sensitizer 10022 3. SCOPE OF THE REVIEW 9995 6. PROSPECTIVES 10024 4. SINGLET OXYGEN IN SYNTHESIS 9995 1 6.1. State of O2 Synthetic Science 10024 4.1. Background 9995 7. SUMMARY AND OUTLOOK 10025 4.2. Endoperoxides 9996 Author Information 10025 4.3. Carbasugars 9998 Corresponding Author 10025 4.4. Epoxides 9999 Notes 10025 4.5. Tropones and Tropolones 10002 Biographies 10025 4.6. Polycyclic Ethers and Polyols 10004 Acknowledgments 10025 4.7. Sterols 10007 Abbreviations 10025 4.8. Opioids 10008 References 10026 4.9. Ring-Fused Examples 10008 4.10. Phenols 10009 4.11. Self-Sensitized Examples 10010 1. INTRODUCTION 4.12. Indoles 10011 1 4.13. -
Deactivation of Redox Mediators in Lithium-Oxygen Batteries by Singlet Oxygen
ARTICLE https://doi.org/10.1038/s41467-019-09399-0 OPEN Deactivation of redox mediators in lithium-oxygen batteries by singlet oxygen Won-Jin Kwak 1, Hun Kim 1, Yann K. Petit2, Christian Leypold2, Trung Thien Nguyen 1, Nika Mahne2, Paul Redfern3, Larry A. Curtiss3, Hun-Gi Jung 4, Sergey M. Borisov5, Stefan A. Freunberger 2 & Yang-Kook Sun 1 Non-aqueous lithium-oxygen batteries cycle by forming lithium peroxide during discharge 1234567890():,; and oxidizing it during recharge. The significant problem of oxidizing the solid insulating lithium peroxide can greatly be facilitated by incorporating redox mediators that shuttle electron-holes between the porous substrate and lithium peroxide. Redox mediator stability is thus key for energy efficiency, reversibility, and cycle life. However, the gradual deactivation of redox mediators during repeated cycling has not conclusively been explained. Here, we show that organic redox mediators are predominantly decomposed by singlet oxygen that forms during cycling. Their reaction with superoxide, previously assumed to mainly trigger their degradation, peroxide, and dioxygen, is orders of magnitude slower in comparison. The reduced form of the mediator is markedly more reactive towards singlet oxygen than the oxidized form, from which we derive reaction mechanisms supported by density functional theory calculations. Redox mediators must thus be designed for stability against singlet oxygen. 1 Department of Energy Engineering, Hanyang University, Seoul 04763, Republic of Korea. 2 Institute for Chemistry and Technology of Materials, Graz University of Technology, Graz 8010, Austria. 3 Materials Science Division, Argonne National Laboratory, Illinois 60439, USA. 4 Center for Energy Convergence Research, Green City Technology Institute, Korea Institute of Science and Technology, Seoul 02792, Republic of Korea. -
Oxidation of Alkyl Benzenes by a Flavin Photooxidation Catalyst on Nanostructured Metal-Oxide Films
Oxidation of alkyl benzenes by a flavin photooxidation catalyst on nanostructured metal-oxide films Prateek Dongarea, Ian MacKenziea, Degao Wanga, David A. Nicewicza,1, and Thomas J. Meyera,1 aDepartment of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599 Contributed by Thomas J. Meyer, June 22, 2017 (sent for review May 3, 2017; reviewed by James M. Mayer and David G. Whitten) We describe here a surface-bound, oxide-based procedure for the proton-coupled electron transfer (PCET) (22), oxidizes the alkyl photooxidation of a family of aromatic hydrocarbons by a phosphate- aromatic substrate within 6 μs in 1:1 vol/vol H2O/MeCN to give a bearing flavin mononucleotide (FMN) photocatalyst on high surface dihydroflavin intermediate (FMNH2)(23).FMNH2 is sub- area metal-oxide films. sequently reoxidized to the ground state with oxygen as the ter- minal oxidant (17, 24, 25). A mechanism analogous to flavin | excited state | photooxidation | oxide surface | alkyl benzene methoxybenzyl alcohol oxidation by riboflavin tetraacetate in 1:1 vol/vol H2O/MeCN by Megerle et al. (18) is shown in Eqs. 2–4. n important element in synthetic organic chemistry has been In an alternate pathway, formation of an alkyl benzene radical in Athe development and application of organic excited states in the presence of oxygen has the capability to initiate radical chains, as solution, either by sensitization or electron transfer catalysis (1). the peroxyl radicals are very reactive with their corresponding alkyl Exploitation of organic excited states has evolved from the bench benzene form. As pointed out earlier, there is a possibility of scale to the photochemical reactor scale. -
Diels–Alder Reaction
Diels–Alder reaction In organic chemistry, the Diels–Alder reaction is a chemical reaction Diels–Alder reaction between a conjugated diene and a substituted alkene, commonly termed the Named after Otto Paul Hermann dienophile (also spelled dieneophile[1]), to form a substituted cyclohexene derivative. It is the prototypical example of a pericyclic reaction with a Diels concerted mechanism. More specifically, it is classified as a thermally- Kurt Alder allowed [4+2] cycloaddition with Woodward–Hoffmann symbol [π4s + π2s]. Reaction type Cycloaddition It was first described by Otto Diels and Kurt Alder in 1928. For the Reaction discovery of this reaction, they were awarded the Nobel Prize in Chemistry in 1950. Through the simultaneous construction of two new carbon–carbon bonds, the Diels–Alder reaction provides a reliable way to form six- membered rings with good control over the regio- and stereochemical outcomes.[2][3] Consequently, it has served as a powerful and widely applied tool for the introduction of chemical complexity in the synthesis of natural conjugated (substituted) Diene products and new materials.[4][5] The underlying concept has also been applied to π-systems involving heteroatoms, such as carbonyls and imines, + which furnish the corresponding heterocycles; this variant is known as the (substituted) Alkene hetero-Diels–Alder reaction. The reaction has also been generalized to other ring sizes, although none of these generalizations have matched the ↓ formation of six-membered rings in terms of scope or versatility. Because of (substituted) Cyclohexene the negative values of ΔH° and ΔS° for a typical Diels–Alder reaction, the Identifiers microscopic reverse of a Diels–Alder reaction becomes favorable at high temperatures, although this is of synthetic importance for only a limited range Organic Chemistry diels-alder-reaction of Diels-Alder adducts, generally with some special structural features; this Portal [6] reverse reaction is known as the retro-Diels–Alder reaction. -
And Autoxidation of Unsaturated Algal Lipids in the Marine Environment
Photo- and autoxidation of unsaturated algal lipids in the marine environment: An overview of processes, their potential tracers, and limitations Jean-Francois Rontani, Simon T. Belt To cite this version: Jean-Francois Rontani, Simon T. Belt. Photo- and autoxidation of unsaturated algal lipids in the marine environment: An overview of processes, their potential tracers, and limitations. Organic Geochemistry, Elsevier, 2020, 139, 10.1016/j.orggeochem.2019.103941. hal-03020022 HAL Id: hal-03020022 https://hal.archives-ouvertes.fr/hal-03020022 Submitted on 4 Dec 2020 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. Elsevier Editorial System(tm) for Organic Geochemistry Manuscript Draft Manuscript Number: OG-4257R1 Title: Photo- and autoxidation of unsaturated algal lipids in the marine environment: an overview of processes, their potential tracers, and limitations Article Type: Review Article Keywords: Photooxidation; Singlet oxygen; Free radical oxidation; Autoxidation; Lipids; Phytoplanktonic cells; Senescence; Tracers. Corresponding Author: Dr. Jean François Rontani, Corresponding Author's Institution: M.I.O. First Author: Jean François Rontani Order of Authors: Jean François Rontani; Simon T Belt Abstract: The present paper provides an overview of results obtained in the course of recent studies dealing with abiotic degradation of algal lipids in the marine realm. -
Singlet Oxygen Generation Using New Fluorene-Based Photosensitizers Under One- and Two-Photon Excitation
University of Central Florida STARS Electronic Theses and Dissertations, 2004-2019 2007 Singlet Oxygen Generation Using New Fluorene-based Photosensitizers Under One- And Two-photon Excitation Stephen James Andrasik University of Central Florida Part of the Chemistry Commons Find similar works at: https://stars.library.ucf.edu/etd University of Central Florida Libraries http://library.ucf.edu This Doctoral Dissertation (Open Access) is brought to you for free and open access by STARS. It has been accepted for inclusion in Electronic Theses and Dissertations, 2004-2019 by an authorized administrator of STARS. For more information, please contact [email protected]. STARS Citation Andrasik, Stephen James, "Singlet Oxygen Generation Using New Fluorene-based Photosensitizers Under One- And Two-photon Excitation" (2007). Electronic Theses and Dissertations, 2004-2019. 3065. https://stars.library.ucf.edu/etd/3065 SINGLET OXYGEN GENERATION USING NEW FLUORENE-BASED PHOTOSENSITIZERS UNDER ONE- AND TWO-PHOTON EXCITATION by STEPHEN J. ANDRASIK B.S. University of Central Florida, 2001 M.S. University of Central Florida, 2004 A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in the Department of Chemistry in the College of Sciences at the University of Central Florida Orlando, Florida Fall Term 2007 Major Professor: Kevin D. Belfield © 2007 Stephen J. Andrasik ii ABSTRACT Molecular oxygen in its lowest electronically excited state plays an important roll in the field of chemistry. This excited state is often referred to as singlet oxygen and can be generated in a photosensitized process under one- or two-photon excitation of a photosensitizer. It is particularly useful in the field of photodynamic cancer therapy (PDT) where singlet oxygen formation can be used to destroy cancerous tumors. -
Photooxygenation in Polymer Matrices: En Route to Highly Active Antimalarial Peroxides*
Pure Appl. Chem., Vol. 77, No. 6, pp. 1059–1074, 2005. DOI: 10.1351/pac200577061059 © 2005 IUPAC Photooxygenation in polymer matrices: En route to highly active antimalarial peroxides* Axel G. Griesbeck‡, Tamer T. El-Idreesy, and Anna Bartoschek Institute of Organic Chemistry, University of Cologne, Greinstrasse 4, D-50939 Köln, Germany Abstract: Photooxygenation involving the first excited singlet state of molecular oxygen is a versatile method for the generation of a multitude of oxy-functionalized target molecules often with high regio- and stereoselectivities. The efficiency of singlet-oxygen reactions is largely dependent on the nonradiative deactivation paths, mainly induced by the solvent and the substrate intrinsically. The intrinsic (physical) quenching properties as well as the selec- tivity-determining factors of the (chemical) quenching can be modified by adjusting the microenvironment of the reactive substrate. Tetraarylporphyrins or protoporphyrin IX were embedded in polystyrene (PS) beads and in polymer films or covalently linked into PS dur- ing emulsion polymerization. These polymer matrices are suitable for a broad variety of (sol- vent-free) photooxygenation reactions. One specific example discussed in detail is the ene re- action of singlet oxygen with chiral allylic alcohols yielding unsaturated β-hydroperoxy alcohols in (threo) diastereoselectivities, which depended on the polarity and hydrogen- bonding capacity of the polymer matrix. These products were applied for the synthesis of mono- and spirobicyclic 1,2,4-trioxanes, molecules that showed moderate to high antimalar- ial properties. Subsequent structure optimization resulted in in vitro activities that surpassed that of the naturally occurring sesquiterpene-peroxide artemisinin. Keywords: photochemistry; oxygen; malaria; peroxide; polymers. INTRODUCTION The active species in type II photooxygenation reactions is molecular oxygen in its first excited singlet state, as originally postulated by Kautsky [1].