Radical Stability—A Theoretical Perspective
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The Reactivity of Fluorinated Radicals in Liquid Phase
THE REACnVITY OF FLUORINATED RADICALS IN LIQUID PHASE By XIAOXINRONG A DISSERTATION PRESENTED TO THE GRADUATE SCHOOL OF THE UNIVERSITY OF FLORIDA IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY UNIVERSITY OF FLORIDA . TO MOM, DAD AND XIAO JUN ACKNOWLEDGMENTS I wish to express my gratitude for the excellent guidance and friendship of my research advisor. Dr. William R. Dolbier, Jr. It is he who has made the fulfillment of this dream come true. His enthusiasm for chemistry and his understanding nature have been an inspiration to me throughout the course of my graduate studies. With Professor Dolbier, the chemistry is always surmountable and one comes away with a positive feeling towards oneself and the tasks ahead, which has led to an enjoyable and rewarding experience. I would like to give my special thanks to my committee members, especially. Dr. David H. Powell for giving me a chance to work in the mass-spectrum lab. in the early years of my graduate studies, which made me learn mass spectrometry systematically. Such knowledge has given me a lot of benefits in my research work. It is a pleasure to thank the many friends and colleagues I have met and worked with at the University of Florida. Due to my extended stay in the Dolbier group, thanks are required to a number of lab-mates; Conrad Burkholder for stimulating discussions, Michael Bartberger for his help in lab-management, Michelle Fletcher for her help in English to write this dissertation, Lu Lian, Rogelio Ocampo, Melvin Wagner, Luz Amalia, and more recently Xu Yuelian, Hao Jian, all for providing valuable friendships. -
A Photoionization Reflectron Time‐Of‐Flight Mass Spectrometric
Articles ChemPhysChem doi.org/10.1002/cphc.202100064 A Photoionization Reflectron Time-of-Flight Mass Spectrometric Study on the Detection of Ethynamine (HCCNH2) and 2H-Azirine (c-H2CCHN) Andrew M. Turner,[a, b] Sankhabrata Chandra,[a, b] Ryan C. Fortenberry,*[c] and Ralf I. Kaiser*[a, b] Ices of acetylene (C2H2) and ammonia (NH3) were irradiated with 9.80 eV, and 10.49 eV were utilized to discriminate isomers energetic electrons to simulate interstellar ices processed by based on their known ionization energies. Results indicate the galactic cosmic rays in order to investigate the formation of formation of ethynamine (HCCNH2) and 2H-azirine (c-H2CCHN) C2H3N isomers. Supported by quantum chemical calculations, in the irradiated C2H2:NH3 ices, and the energetics of their experiments detected product molecules as they sublime from formation mechanisms are discussed. These findings suggest the ices using photoionization reflectron time-of-flight mass that these two isomers can form in interstellar ices and, upon spectrometry (PI-ReTOF-MS). Isotopically-labeled ices confirmed sublimation during the hot core phase, could be detected using the C2H3N assignments while photon energies of 8.81 eV, radio astronomy. 1. Introduction acetonitrile (CH3CN; 1) and methyl isocyanide (CH3NC; 2) ‘isomer doublet’ (Figure 2) – the methyl-substituted counterparts of For the last decade, the elucidation of the fundamental reaction hydrogen cyanide (HCN) and hydrogen isocyanide (HNC) – has pathways leading to structural isomers – molecules with the been detected toward the star-forming region SgrB2.[4,8–9] same molecular formula, but distinct connectivities of atoms – However, none of their higher energy isomers has ever been of complex organic molecules (COMs) in the interstellar identified in any astronomical environment: 2H-azirine (c- [10–14] [15–19] medium (ISM) has received considerable interest from the NCHCH2; 3), ethynamine (HCCNH2; 4), ketenimine [1–3] [20] [21] astrochemistry and physical chemistry communities. -
A Chemical Kinetics Network for Lightning and Life in Planetary Atmospheres P
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by St Andrews Research Repository The Astrophysical Journal Supplement Series, 224:9 (33pp), 2016 May doi:10.3847/0067-0049/224/1/9 © 2016. The American Astronomical Society. All rights reserved. A CHEMICAL KINETICS NETWORK FOR LIGHTNING AND LIFE IN PLANETARY ATMOSPHERES P. B. Rimmer and Ch Helling School of Physics and Astronomy, University of St Andrews, St Andrews, KY16 9SS, UK; [email protected] Received 2015 June 3; accepted 2015 October 22; published 2016 May 23 ABSTRACT There are many open questions about prebiotic chemistry in both planetary and exoplanetary environments. The increasing number of known exoplanets and other ultra-cool, substellar objects has propelled the desire to detect life andprebiotic chemistry outside the solar system. We present an ion–neutral chemical network constructed from scratch, STAND2015, that treats hydrogen, nitrogen, carbon, and oxygen chemistry accurately within a temperature range between 100 and 30,000 K. Formation pathways for glycine and other organic molecules are included. The network is complete up to H6C2N2O3. STAND2015 is successfully tested against atmospheric chemistry models for HD 209458b, Jupiter, and the present-day Earth using a simple one- dimensionalphotochemistry/diffusion code. Our results for the early Earth agree with those of Kasting for CO2,H2, CO, and O2, but do not agree for water and atomic oxygen. We use the network to simulate an experiment where varied chemical initial conditions are irradiated by UV light. The result from our simulation is that more glycine is produced when more ammonia and methane is present. -
A Dictionary of Chinese Characters: Accessed by Phonetics
A dictionary of Chinese characters ‘The whole thrust of the work is that it is more helpful to learners of Chinese characters to see them in terms of sound, than in visual terms. It is a radical, provocative and constructive idea.’ Dr Valerie Pellatt, University of Newcastle. By arranging frequently used characters under the phonetic element they have in common, rather than only under their radical, the Dictionary encourages the student to link characters according to their phonetic. The system of cross refer- encing then allows the student to find easily all the characters in the Dictionary which have the same phonetic element, thus helping to fix in the memory the link between a character and its sound and meaning. More controversially, the book aims to alleviate the confusion that similar looking characters can cause by printing them alongside each other. All characters are given in both their traditional and simplified forms. Appendix A clarifies the choice of characters listed while Appendix B provides a list of the radicals with detailed comments on usage. The Dictionary has a full pinyin and radical index. This innovative resource will be an excellent study-aid for students with a basic grasp of Chinese, whether they are studying with a teacher or learning on their own. Dr Stewart Paton was Head of the Department of Languages at Heriot-Watt University, Edinburgh, from 1976 to 1981. A dictionary of Chinese characters Accessed by phonetics Stewart Paton First published 2008 by Routledge 2 Park Square, Milton Park, Abingdon, OX14 4RN Simultaneously published in the USA and Canada by Routledge 270 Madison Ave, New York, NY 10016 Routledge is an imprint of the Taylor & Francis Group, an informa business This edition published in the Taylor & Francis e-Library, 2008. -
The Two Faces of the Guanyl Radical: Molecular Context and Behavior
molecules Review The Two Faces of the Guanyl Radical: Molecular Context and Behavior Chryssostomos Chatgilialoglu 1,2 1 ISOF, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; [email protected]; Tel.: +39-051-6398309 2 Center of Advanced Technologies, Adam Mickiewicz University, 61-712 Pozna´n,Poland Abstract: The guanyl radical or neutral guanine radical G(-H)• results from the loss of a hydrogen atom (H•) or an electron/proton (e–/H+) couple from the guanine structures (G). The guanyl radical exists in two tautomeric forms. As the modes of formation of the two tautomers, their relationship and reactivity at the nucleoside level are subjects of intense research and are discussed in a holistic manner, including time-resolved spectroscopies, product studies, and relevant theoretical calculations. Particular attention is given to the one-electron oxidation of the GC pair and the complex mechanism of the deprotonation vs. hydration step of GC•+ pair. The role of the two G(-H)• tautomers in single- and double-stranded oligonucleotides and the G-quadruplex, the supramolecular arrangement that attracts interest for its biological consequences, are considered. The importance of biomarkers of guanine DNA damage is also addressed. Keywords: guanine; guanyl radical; tautomerism; guanine radical cation; oligonucleotides; DNA; G-quadruplex; time-resolved spectroscopies; reactive oxygen species (ROS); oxidation 1. The Guanine Sink Citation: Chatgilialoglu, C. The Two The free radical chemistry associated with guanine (Gua) and its derivatives, guano- Faces of the Guanyl Radical: sine (Guo), 2’-deoxyguanosine (dGuo), guanosine-50-monophosphate (GMP), and 20- Molecular Context and Behavior. deoxyguanosine-50-monophosphate (dGMP), is of particular interest due to its biological Molecules 2021, 26, 3511. -
The WMS Model
Electronic Supplementary Material (ESI) for Physical Chemistry Chemical Physics. This journal is © the Owner Societies 2018 S-1 ELECTRONIC SUPPLEMENTARY INFORMATION OCT. 8, 2018 Extrapolation of High-Order Correlation Energies: The WMS Model Yan Zhao,a Lixue Xia,a Xiaobin Liao,a Qiu He,a Maria X. Zhao,b and Donald G. Truhlarc aState Key Laboratory of Silicate Materials for Architectures,International School of Materials Science and Engineering, Wuhan University of Technology, Wuhan 430070, People’s Republic of China. bLynbrook High School, 1280 Johnson Avenue, San Jose, California 95129 cDepartment of Chemistry and Supercomputing Institute, University of Minnesota, 207 Pleasant Street S.E., Minneapolis, MN 55455-0431 TABLE OF CONTENTS Table S1: Calculated classical barrier heights (kcal/mol) for the DBH24-W4 database S-2 Table S2: RMSE of the scalar relativistic contribution in WMS (kcal/mol) S-3 Table S3: RMSE of the composite methods for the W4-17 database (kcal/mol) S-4 Table S4: Calculated Born-Oppenheimer atomization energy (kcal/mol) for the W4-17 database S-5 Table S5: Example input file for a WMS calculation: the H2O molecule S-11 Table S6: Example input file for a WMS calculation: the CH3 radical S-12 Table S7. perl scripts for performing WMS calculations S-13 S-2 Table S1: Calculated classical barrier heights (kcal/mol) for the DBH24-W4 database (The ZPE contributions are excluded.) Reactions Best Est. WMS Hydrogen Atom Transfers ! ∆E! 6.35 6.25 OH + CH4 → CH3 + H2O ! ∆E! 19.26 19.28 ! ∆E! 10.77 10.88 H + OH → O + H2 ! ∆E! 13.17 -
Photoredox Α‑Vinylation of Α‑Amino Acids and N‑Aryl Amines Adam Noble and David W
Communication pubs.acs.org/JACS Open Access on 07/14/2015 Photoredox α‑Vinylation of α‑Amino Acids and N‑Aryl Amines Adam Noble and David W. C. MacMillan* Merck Center for Catalysis at Princeton University, Princeton, New Jersey 08544, United States *S Supporting Information radicals to the direct synthesis of allylic amines from N-aryl ABSTRACT: A new coupling protocol has been amines or α-amino acids. Specifically, we hypothesized that allyl developed that allows the union of vinyl sulfones with amines should be accessible via exposure of α-amino radicals to photoredox-generated α-amino radicals to provide allylic olefins that can generically participate in radical-based vinylation amines of broad diversity. Direct C−H vinylations of N- mechanisms (i.e., incorporate leaving groups that are susceptible aryl tertiary amines, as well as decarboxylative vinylations to single-electron β-elimination pathways). As an overarching of N-Boc α-amino acids, proceed in high yield and with goal of this work we hoped to demonstrate that photoredox- excellent olefin geometry control. The utility of this new generated α-amino radicals provide a complementary approach allyl amine forming reaction has been demonstrated via the to allyl amine production in comparison to stoichiometric metal- syntheses of several natural products and a number of based technologies. Herein, we describe the successful execution established pharmacophores. of these ideals and present the first direct C−H vinylation of N- aryl tertiary amines and the first decarboxylative olefination of N- Boc α-amino acids using vinyl sulfones in the presence of isible light photoredox catalysis has recently emerged as a iridium-based MLCT catalysts. -
Nature of the First Electron Transfer in Electrochemical Ammonia Activation in a Nonaqueous Medium
Nature of the First Electron Transfer in Electrochemical Ammonia Activation in a Nonaqueous Medium The MIT Faculty has made this article openly available. Please share how this access benefits you. Your story matters. Citation Schiffer, Zachary et al. "Nature of the First Electron Transfer in Electrochemical Ammonia Activation in a Nonaqueous Medium." Journal of Physical Chemistry C 123, 15 (April 2019): 9713-9720 © 2019 American Chemical Society As Published http://dx.doi.org/10.1021/ACS.JPCC.9B00669 Publisher American Chemical Society (ACS) Version Author's final manuscript Citable link https://hdl.handle.net/1721.1/124016 Terms of Use Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use. Nature of the First Electron Transfer in Electrochemical Ammonia Activation in a Non-Aqueous Medium Zachary J Schiffer1, Nikifar Lazouski1, Nathan Corbin1, Karthish Manthiram1,* 1Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA *Corresponding Author: 617-715-5740, [email protected] 1 Abstract Decreasing costs of renewable sources of electricity will increase the viability of electrochemical processes in chemical manufacturing. To this end, improved understanding of electrochemical N-H bond activation is essential to develop electrochemical routes for nitrogen-containing chemicals. In this work, we investigate electrochemical ammonia activation in acetonitrile, a prototypical non-aqueous solvent for electro-organic syntheses. Non-aqueous environments are desirable for electro- organic syntheses due to large electrochemical stability windows and high solubility for organic products. We find that ammonia oxidation in acetonitrile proceeds through an outer-sphere mechanism involving an initial electron transfer as the rate-determining step, likely producing an ammonia radical cation. -
Deoxyuridine-5'-Phosphate, Uridine-5-Phosphate and Thymidine-5-Phosphate
The SO 4-induced Oxidation of 2'-Deoxyuridine-5'-phosphate, Uridine-5-phosphate and Thymidine-5-phosphate. An ESR Study in Aqueous Solution Knut Hildenbrand Max-Planck-Institut für Strahlenchemie, Stiftstraße 34, D-4330 Mülheim a. d. Ruhr, Bundesrepublik Deutschland Z. Naturforsch. 45c, 47-58 (1990); received August 9, 1989 In memoriam Professor Dr. O. E. Polansky Free Radicals, ESR, Pyrimidine-5'-nucleotides, Radical Cation Reactions of photolytically generated SOJ with 2'-deoxyuridine-5'-phosphate (5'-dUMP), uridine-5'-phosphate (5'-UMP) and thymidine-5'-phosphate (5'-dTMP) were studied by ESR spectroscopy in aqueous solution under anoxic conditions. From 5'-dUMP and 5'-UMP the 5',5-cyclic phosphate- 6-yl radicals 10 and 11 were generated (pH 2-11) whereas from 5'-dTMP at .pH 3-8 the 5,6-dihydro-6-hydroxy-5-yl radical 14 and at pH 7-11 the 5-methylene-2'-deoxyuridine-5'-phosphate radical 15 was produced. In the experiments with 5'-UMP in addition to radical 11 the signals of sugar radicals 12 and 13 were detected. It is assumed that the base radical cations act as intermediates in the SO^-induced radical reac tions. The 5'-phosphate group adds intramolecularly to the C(5)-C(6) bond of the uraclilyl radical cation whereas the thymidyl radical cation of 5'-dTMP reacts with H20 at pH < 8 to yield the 6-OH-5-yl adduct 14 and deprotonates at pH > 7 thus forming the allyl-type radical 15. In 5'-UMP transfer of the radical site from the base to the sugar moiety competes with intramolecular phosphate addition. -
Bicarbonate and Alkyl Carbonate Radicals: Their Structural Integrity and Reactions with Lipid Components Michael Buehl, Peter Dabell, David W
Subscriber access provided by Brought to you by ST ANDREWS UNIVERSITY LIBRARY Article Bicarbonate and Alkyl Carbonate Radicals: Their Structural Integrity and Reactions with Lipid Components Michael Buehl, Peter DaBell, David W. Manley, Rory P. McCaughan, and John C. Walton J. Am. Chem. Soc., Just Accepted Manuscript • DOI: 10.1021/jacs.5b10693 • Publication Date (Web): 01 Dec 2015 Downloaded from http://pubs.acs.org on December 2, 2015 Just Accepted “Just Accepted” manuscripts have been peer-reviewed and accepted for publication. They are posted online prior to technical editing, formatting for publication and author proofing. The American Chemical Society provides “Just Accepted” as a free service to the research community to expedite the dissemination of scientific material as soon as possible after acceptance. “Just Accepted” manuscripts appear in full in PDF format accompanied by an HTML abstract. “Just Accepted” manuscripts have been fully peer reviewed, but should not be considered the official version of record. They are accessible to all readers and citable by the Digital Object Identifier (DOI®). “Just Accepted” is an optional service offered to authors. Therefore, the “Just Accepted” Web site may not include all articles that will be published in the journal. After a manuscript is technically edited and formatted, it will be removed from the “Just Accepted” Web site and published as an ASAP article. Note that technical editing may introduce minor changes to the manuscript text and/or graphics which could affect content, and all legal disclaimers and ethical guidelines that apply to the journal pertain. ACS cannot be held responsible for errors or consequences arising from the use of information contained in these “Just Accepted” manuscripts. -
New Blatter-Type Radicals from a Bench-Stable Carbene
ARTICLE Received 6 Aug 2016 | Accepted 28 Feb 2017 | Published 15 May 2017 DOI: 10.1038/ncomms15088 OPEN New Blatter-type radicals from a bench-stable carbene Jacob A. Grant1, Zhou Lu2, David E. Tucker1, Bryony M. Hockin1, Dmitry S. Yufit1, Mark A. Fox1, Ritu Kataky1, Victor Chechik2 & AnnMarie C. O’Donoghue1 Stable benzotriazinyl radicals (Blatter’s radicals) recently attracted considerable interest as building blocks for functional materials. The existing strategies to derivatize Blatter’s radicals are limited, however, and synthetic routes are complex. Here, we report that an inexpensive, commercially available, analytical reagent Nitron undergoes a previously unrecognized transformation in wet acetonitrile in the presence of air to yield a new Blatter-type radical with an amide group replacing a phenyl at the C(3)-position. This one-pot reaction of Nitron provides access to a range of previously inaccessible triazinyl radicals with excellent benchtop stabilities. Mechanistic investigation suggests that the reaction starts with a hydrolytic cleavage of the triazole ring followed by oxidative cyclization. Several derivatives of Nitron were prepared and converted into Blatter-type radicals to test the synthetic value of the new reaction. These results significantly expand the scope of using functionalized benzotriazinyls as stable radical building blocks. 1 Department of Chemistry, Durham University, South Road, Durham DH1 3LE, UK. 2 Department of Chemistry, University of York, Heslington, York YO10 5DD, UK. Correspondence and requests for materials should be addressed to V.C. (email: [email protected]) or to A.M.C.O’D. (email: [email protected]). NATURE COMMUNICATIONS | 8:15088 | DOI: 10.1038/ncomms15088 | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/ncomms15088 1 latter’s radical 1 (Fig. -
"Radical Stability --- Thermochemical Aspects" In
Radical Stability—Thermochemical Aspects Johnny Hioe and Hendrik Zipse Department of Chemistry, LMU M¨unchen, M¨unchen, Germany 1 INTRODUCTION is quite challenging. Kinetic data, in contrast, are much more difficult to predict by theory, while the The terms “transient” and “persistent” are used determination of reaction rates can be approached frequently in the scientific literature to describe experimentally with a variety of direct or indirect the kinetic properties of open shell systems in methods, at least for sufficiently fast reactions homogeneous solution.1–5 The hydroxyl radical (see Radical Kinetics and Clocks). Theory and (HO•, 1), for example, is a transient species of experiment pair up nicely in this respect, as a central importance in atmospheric chemistry (see combination of these approaches is able to provide Atmospheric Radical Chemistry), as well as one a comprehensive picture of thermodynamic and of the most important reactive oxygen species kinetic data. (ROS) in aqueous solution, whereas the nitroxide 2,2,6,6-tetramethylpiperidine-1-oxyl, TEMPO (2)is a persistent radical stable enough to be bottled and 2 DEFINITIONS OF RADICAL STABILITY sold in bulk (Figure 1) (see Nitroxides in Synthetic Radical Chemistry). The thermodynamic stability of C-centered radicals However, despite their widespread use, these can be defined in various ways and several options terms are not too helpful for a quantitative approach are discussed in the following.6–10 One of the to radical chemistry as they do not reflect the most often used definitions is based on hydrogen influence of thermochemical driving force and transfer reactions as shown in Scheme 1 for reaction • intrinsic reaction barrier on the observed lifetime.