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Significance and Implications of Vitamin B-12 Reaction Shema- ETH ZURICH VARIANT: Mechanisms and Insights
Taylor University Pillars at Taylor University Student Scholarship: Chemistry Chemistry and Biochemistry Fall 2019 Significance and Implications of Vitamin B-12 Reaction Shema- ETH ZURICH VARIANT: Mechanisms and Insights David Joshua Ferguson Follow this and additional works at: https://pillars.taylor.edu/chemistry-student Part of the Analytical Chemistry Commons, Inorganic Chemistry Commons, Organic Chemistry Commons, Other Chemistry Commons, and the Physical Chemistry Commons CHEMISTRY THESIS SIGNIFICANCE AND IMPLICATIONS OF VITAMIN B-12 REACTION SCHEMA- ETH ZURICH VARIANT: MECHANISMS AND INSIGHTS DAVID JOSHUA FERGUSON 2019 2 Table of Contents: Chapter 1 6 Chapter 2 17 Chapter 3 40 Chapter 4 59 Chapter 5 82 Chapter 6 118 Chapter 7 122 Appendix References 3 Chapter 1 A. INTRODUCTION. Vitamin B-12 otherwise known as cyanocobalamin is a compound with synthetic elegance. Considering how it is composed of an aromatic macrocyclic corrin there are key features of this molecule that are observed either in its synthesis of in the biochemical reactions it plays a role in whether they be isomerization reactions or transfer reactions. In this paper the focus for the discussion will be on the history, chemical significance and total synthesis of vitamin B12. Even more so the paper will be concentrated one of the two variants of the vitamin B-12 synthesis, namely the ETH Zurich variant spearheaded by Albert Eschenmoser.Examining the structure as a whole it is observed that a large portion of the vitamin B12 is a corrin structure with a cobalt ion in the center of the macrocyclic part, and that same cobalt ion has cyanide ligands. -
3.1.4 Droplet-Based Microfluidics
Rodriguez Garcia, Marc (2016) Engineering the transition from non-living to living matter. PhD thesis. https://theses.gla.ac.uk/7605/ Copyright and moral rights for this work are retained by the author A copy can be downloaded for personal non-commercial research or study, without prior permission or charge This work cannot be reproduced or quoted extensively from without first obtaining permission in writing from the author The content must not be changed in any way or sold commercially in any format or medium without the formal permission of the author When referring to this work, full bibliographic details including the author, title, awarding institution and date of the thesis must be given Enlighten: Theses https://theses.gla.ac.uk/ [email protected] Engineering the transition from non-living to living matter Marc Rodríguez Garcia A thesis submitted to the University of Glasgow for the degree of Doctor of Philosophy School of Chemistry College of Science and Engineering August 2016 A tota la meva família, per haver-me ajudat a arribar fins aquí. Però sobretot als meus pares, per estar tant a prop malgrat la distància. I en especial a la Nuria, per ser el motiu que em fa tirar endavant. “The good thing about science is that it's true whether or not you believe in it.” -Neil deGrasse Tyson Acknowledgements 1 Acknowledgements This project was carried out between September 2012 and June 2016 in the group of Prof Leroy Cronin in the School of Chemistry at the University of Glasgow. I have received much help and support from many colleagues and friends. -
Part I Principles of Enzyme Catalysis
j1 Part I Principles of Enzyme Catalysis Enzyme Catalysis in Organic Synthesis, Third Edition. Edited by Karlheinz Drauz, Harald Groger,€ and Oliver May. Ó 2012 Wiley-VCH Verlag GmbH & Co. KGaA. Published 2012 by Wiley-VCH Verlag GmbH & Co. KGaA. j3 1 Introduction – Principles and Historical Landmarks of Enzyme Catalysis in Organic Synthesis Harald Gr€oger and Yasuhisa Asano 1.1 General Remarks Enzyme catalysis in organic synthesis – behind this term stands a technology that today is widely recognized as a first choice opportunity in the preparation of a wide range of chemical compounds. Notably, this is true not only for academic syntheses but also for industrial-scale applications [1]. For numerous molecules the synthetic routes based on enzyme catalysis have turned out to be competitive (and often superior!) compared with classic chemicalaswellaschemocatalyticsynthetic approaches. Thus, enzymatic catalysis is increasingly recognized by organic chemists in both academia and industry as an attractive synthetic tool besides the traditional organic disciplines such as classic synthesis, metal catalysis, and organocatalysis [2]. By means of enzymes a broad range of transformations relevant in organic chemistry can be catalyzed, including, for example, redox reactions, carbon–carbon bond forming reactions, and hydrolytic reactions. Nonetheless, for a long time enzyme catalysis was not realized as a first choice option in organic synthesis. Organic chemists did not use enzymes as catalysts for their envisioned syntheses because of observed (or assumed) disadvantages such as narrow substrate range, limited stability of enzymes under organic reaction conditions, low efficiency when using wild-type strains, and diluted substrate and product solutions, thus leading to non-satisfactory volumetric productivities. -
Searching for Nucleic Acid Alternatives
MODIFIED OLIGONUCLEOTIDES 836 CHIMIA 2005, 59, No. 11 Chimia 59 (2005) 836–850 © Schweizerische Chemische Gesellschaft ISSN 0009–4293 Searching for Nucleic Acid Alternatives Albert Eschenmoser* Abstract: “Back of the envelope” methods have their place in experimental chemical research; they are effective mediators in the generation of research ideas, for instance, the design of molecular structures. Their qualitative character is part of their strength, rather than a drawback for the role they have to play. Qualitative conformational analysis of oligonucleotide and other oligomer systems on the level of idealized conformations is one such method; it has played a helpful role in our work on the chemical etiology of nucleic acid structure. This article, while giving a short overview of that work, shows how. Keywords: Conformational analysis of oligonucleotides · Nucleic acid analogs · Oligonucleodipeptides · p-RNA · TNA · Watson-Crick base-pairing Chemists understand by comparing, not ‘ab structural or transformational complexity, we know today as the molecular basis of initio’. To perceive and to create opportuni- serve the purpose of creating opportunities genetic function. The specific property to ties for drawing conclusions on the basis of to compare the behavior of complex sys- be compared in this work is a given nucleic comparisons is the organic chemist’s way tems with that of simpler ones. Enzymic re- acid alternative’s capacity for informational of interpreting and exploring the world at actions and enzyme models are examples. -
Recyclable Catalysts for Alkyne Functionalization
molecules Review Recyclable Catalysts for Alkyne Functionalization Leslie Trigoura 1,2 , Yalan Xing 1,* and Bhanu P. S. Chauhan 2,* 1 Department of Chemistry, William Paterson University of New Jersey, 300 Pompton Road, Wayne, NJ 07470, USA; [email protected] 2 Engineered Nanomaterials Laboratory, Department of Chemistry, William Paterson University of New Jersey, 300 Pompton Road, Wayne, NJ 07470, USA * Correspondence: [email protected] (Y.X.); [email protected] (B.P.S.C.); Tel.: +1-973-720-2470 (B.P.S.C.) Abstract: In this review, we present an assessment of recent advances in alkyne functionalization reactions, classified according to different classes of recyclable catalysts. In this work, we have in- corporated and reviewed the activity and selectivity of recyclable catalytic systems such as polysiloxane- encapsulated novel metal nanoparticle-based catalysts, silica–copper-supported nanocatalysts, graphitic carbon-supported nanocatalysts, metal organic framework (MOF) catalysts, porous organic frame- work (POP) catalysts, bio-material-supported catalysts, and metal/solvent free recyclable catalysts. In addition, several alkyne functionalization reactions have been elucidated to demonstrate the success and efficiency of recyclable catalysts. In addition, this review also provides the fundamental knowl- edge required for utilization of green catalysts, which can combine the advantageous features of both homogeneous (catalyst modulation) and heterogeneous (catalyst recycling) catalysis. Keywords: green catalysts; nanosystems; nanoscale catalysts; catalyst modulation; alkyne functional- ization; coupling reactions Citation: Trigoura, L.; Xing, Y.; 1. Introduction Chauhan, B.P.S. Recyclable Catalysts for Alkyne Functionalization. Alkyne functionalization methods constitute one of the most relevant topics in organic Molecules 2021, 26, 3525. https:// synthesis and has resulted in numerous advancements over several years. -
Organometallic Chemistry BASIC PRINCIPLES, APPLICATIONS, and a FEW CASE STUDIES
Safety Moment TYLER LAB GROUP MEETING 1 Safety Moment TYLER LAB GROUP MEETING 2 Metal Hydrides: Benchtop vs. Box Hydride = :H- Hydrides are powerful Lewis bases and reducing agent ◦ Exothermically form H2 (this should scare you) ◦ Heating leads to faster reactivity ◦ H evolution leads to rapid increase in pressure2 ◦ Uncontrolled reactions easily cause runaway exotherm, class D fire, explosion, and death/unemployment LiAlH is the #1 chemical cause of fatality in chemical4 industry 3 Metal Hydrides: “I want to commit the murder I was imprisoned for†.” LiAlH4 ◦ Insanely irritating (serious safety hazard) ◦ Extremely moisture sensitive (don’t leave out for >2 minutes) ◦ Ethereal mixtures are pyrophoric! DiBuAl-H ◦ Pyrophoric – it will explode upon exposure to oxygen NaEt3BH ◦ Pyrophoric in solution LiH and NaH ◦ Can be handled on the benchtop (not >2 minutes) ◦ Parrafin oil dispersions much safer KH ◦ Pyrophoric if not in a dispersion ◦ Handle with extreme care! † Sirius Black, Harry Potter and the Prisoner of Azkaban 4 Metal Hydrides: “I want to commit the murder I was imprisoned for†.” CaH2 ◦ Very safe to handle on the benchtop Pt-H, Pd-H, Ni-H ◦ All very pyrophoric NaBH4 ◦ Very safe in general Other hydrides ◦ Treat as pyrophoric ◦ Transition metal hydrides vary in hydridic strength ◦ General rule of thumb: if it does hydrogenations, it is probably pyrophoric ◦ If they’re in organics of any kind, they are probably pyrophoric † Sirius Black, Harry Potter and the Prisoner of Azkaban 5 Organometallic Chemistry BASIC PRINCIPLES, APPLICATIONS, -
Synthetic Strategies to Access Biologically Important Fluorinated Motifs: Fluoroalkenes and Difluoroketones by Ming-Hsiu Yang Su
Synthetic Strategies to Access Biologically Important Fluorinated Motifs: Fluoroalkenes and Difluoroketones By Ming-Hsiu Yang Submitted to the graduate degree program in Medicinal Chemistry and the Graduate Faculty of the University of Kansas in partial fulfillment of the requirements for the degree of Doctor of Philosophy Chairperson Ryan A. Altman Michael D. Clift Apurba Dutta Michael F. Rafferty Jon A. Tunge Date Defended: April 26, 2017 The Dissertation Committee for Ming-Hsiu Yang certifies that this is the approved version of the following dissertation: Synthetic Strategies to Access Biologically Important Fluorinated Motifs: Fluoroalkenes and Difluoroketones Chairperson Ryan A. Altman Date Approved: April 26, 2017 ii Abstract Ming-Hsiu Yang Department of Medicinal Chemistry, April 2017 The University of Kansas Fluorine plays an important role in drug design, because of some unique features imparted by fluorine. The incorporation of fluorine into small molecules can modulate molecular physicochemical properties, metabolic stability, lipophilicity, and binding affinity to the target proteins. However, few fluorinated molecules are biosynthesized by enzymes. This means incorporating fluorine into the molecules relies on synthetic methods. Thus, efficient synthetic strategies to access the molecules bearing a variety of privileged fluorinated moieties are important for drug discovery. Fluoroalkenes are an isopolar and isosteric mimic of an amide bond with distinct biophysical properties, including decreased H-bond donating and accepting abilities, increased lipophilicity, and metabolic stability. Moreover, fluoroalkenes can also serve as probes for conducting conformational analyses of amides. These potential applications require the development of efficient methods to access fluoroalkenes. In chapter 2, a Shapiro fluorination strategy to access peptidomimetic fluoroalkenes is demonstrated. -
Robert Burns Woodward
The Life and Achievements of Robert Burns Woodward Long Literature Seminar July 13, 2009 Erika A. Crane “The structure known, but not yet accessible by synthesis, is to the chemist what the unclimbed mountain, the uncharted sea, the untilled field, the unreached planet, are to other men. The achievement of the objective in itself cannot but thrill all chemists, who even before they know the details of the journey can apprehend from their own experience the joys and elations, the disappointments and false hopes, the obstacles overcome, the frustrations subdued, which they experienced who traversed a road to the goal. The unique challenge which chemical synthesis provides for the creative imagination and the skilled hand ensures that it will endure as long as men write books, paint pictures, and fashion things which are beautiful, or practical, or both.” “Art and Science in the Synthesis of Organic Compounds: Retrospect and Prospect,” in Pointers and Pathways in Research (Bombay:CIBA of India, 1963). Robert Burns Woodward • Graduated from MIT with his Ph.D. in chemistry at the age of 20 Woodward taught by example and captivated • A tenured professor at Harvard by the age of 29 the young... “Woodward largely taught principles and values. He showed us by • Published 196 papers before his death at age example and precept that if anything is worth 62 doing, it should be done intelligently, intensely • Received 24 honorary degrees and passionately.” • Received 26 medals & awards including the -Daniel Kemp National Medal of Science in 1964, the Nobel Prize in 1965, and he was one of the first recipients of the Arthur C. -
Shapiro Reaction
MANA TV programme SHAPIRO REACTION P. Kiran Kumar Lecturer in Chemistry SGA Government Degree College Yellamanchili SHAPIRO REACTION Treatment of tosyl hydrazone of an aldehyde or a ketone with a strong base leads to the formation of vinyl anion which on hydrolysis given an olefin. Hydrazine Phenyl Hydrazine Tosyl hydrazide (p-Toluenesulfonyl hydrazide) Tosyl hydrazone Formed by Nucleophilic addition between aldehyde or ketone and Tosyl hydrazide (p-Toluenesulfonyl hydrazide) and subsequent loss of carbonyl oxygen Mechanism Deprotonation of Tosyl hydrazone with a strong base to form Hydrazone aza enolate. Elimination of aryl sulfinate gives an unstable anion. Loss of Nitrogen leads to vinyl anion Hydrazone aza enolate unstable anion Vinyl anion Vinyl anions can be trapped by number various electrophiles 1. Hydrolysis gives an Alkene 2. Reaction with D2O gives Deuterated Alkene 3. Reaction with CO2 gives α, β-unsaturated acid 4. Reaction with formaldehyde gives Primary alcohol Vinyl anionsanions can can be be trapped trapped by by number number various various electrophiles – –Cont’dCont’d 5. Reaction with DMF gives an α, β-unsaturated aldehyde 6. Reaction with Alkyl chloride gives an Alkyl substituted alkene 7. Reaction with (CH3)3SiCl gives a Vinyl Silane Shapiro reaction involving cyclic ketones Cyclohexanone Shapiro reaction involving cyclic ketones Mechanism Mechanisms Mechanisms Mechanism Shapiro reaction involving unsymmetrical ketones unsymmetrical ketones gives predominantly less substituted olefins Shapiro reaction involving unsymmetrical ketones Removal of proton from the more substituted carbon atom Not formed Stability of the carbanion: secondary versus tertiary Secondary carbanion Tertiary carbanion Secondary carbanion more stable than primary carbanion. -
Syllabus CHEM 6352 2014
CHEM 6352 Organic Reactions & Synthesis Fall 2014 Jeremy A. May Office: 5025 SERC Office hours: T/Th 10-11 am or by appointment (email me) Email: [email protected] Website: http://mynsm.uh.edu/groups/maygroup/wiki/b24dc/Classes.html Lectures: 154 Fleming Tuesdays and Thursdays 8:30–10:00. August 26–December 6, 2014. Homework Session Saturdays 3:00 pm to 5:30 pm in Fleming 154/160/162. No class November 27–29, 2014 (Thanksgiving recess); Oct. 31st is last day to withdraw Optional Texts (on reserve at MD Anderson Library) Zweifel, G.; Nantz, M. “Modern Organic Synthesis: An Introduction” March, J. “Advanced Organic Chemistry” Corey, E. J.; Cheng, X.-M. “The Logic of Chemical Synthesis” Warren, S. “Designing Organic Syntheses: A Programmed Introduction to the Synthon Approach” Kürti, L.; Czakó, B. “Strategic Applications of Named Reactions in Organic Synthesis” Grossman, R. “The Art of Writing Reasonable Organic Reaction Mechanisms” Model Sets: Students are strongly encouraged to purchase at least one set. HGS biochemistry molecular model sets are recommended and are available at Research Stores in the Old Science Building. Other relevant texts and references: Greene; Wuts. “Protective Groups in Organic Synthesis” Nicolaou, K.C.; Sorensen, E. “Classics in Total Synthesis” Nicolaou, K.C.; Snyder, S. “Classics in Total Synthesis II” Larock, R. C. "Comprehensive Organic Transformations" Hartwig, J. “Organotransition Metal Chemistry: From Bonding to Catalysis” Tsuji, J. “Palladium Reagents and Catalysts” Hegedus, L. “Transition Metals in the Synthesis of Complex Organic Molecules” Problem Sets: Problem Sets will be distributed on Tuesdays (or before) and are due by the next Saturday at the Homework Session. -
6.-Organic-Chemistry-I-Edexcel.Pdf
6: Organic Chemistry I 6A. Introduction to Organic Chemistry Basic definitions Hydrocarbon is a compound consisting of hydrogen and carbon only to know Saturated: Contain single carbon-carbon bonds only Unsaturated : Contains a C=C double bond Molecular formula: The formula which shows the actual number of each type of atom Empirical formula: shows the simplest whole number ratio of atoms of each element in the compound General formula: algebraic formula for a homologous series e.g. CnH2n Structural formula shows the minimal detail that shows the arrangement of atoms in a molecule, eg for butane: CH3CH2CH2CH3 or CH3(CH2)2CH3, Displayed formula: show all the covalent bonds present in a molecule Drawing Displayed formulae Remember that the shape around the carbon atom in saturated hydrocarbons is H H H H When drawing organic tetrahedral and the bond angle is 109.5o H C C C C H compounds add the hydrogen atoms so that H H H H H H C H each carbon has 4 bonds H C C H H H H Skeletal formula shows the simplified organic formula, shown by removing hydrogen atoms from alkyl chains, leaving just a carbon skeleton and associated functional Groups. OH But-2-ene Butan-1-ol 2-methylbutane cyclohexane cyclohexene N Goalby chemrevise.org 1 Homologous series are families of organic compounds with the same functional group and same general formula. •They show a gradual change in physical properties (e.g. boiling point). • Each member differs by CH2 from the last. • same chemical properties. Functional group is an atom or group of atoms which when present -
Acta 20, 2009
07_Eschenmoser(OK) Gabri_dis:Layout 1 25/09/09 11:07 Pagina 181 Scientific Insights into the Evolution of the Universe and of Life Pontifical Academy of Sciences, Acta 20, 2009 www.pas.va/content/dam/accademia/pdf/acta20/acta20-eschenmoser.pdf THE SEARCH FOR THE CHEMISTRY OF LIFE’S ORIGIN ALBERT ESCHENMOSER A central postulate of contemporary natural science states that life emerged on Earth (or elsewhere) through a transition of chemical matter from non-living to living. The transition is seen as a contingent consequence of the second law of thermodynamics and the chemical properties of matter by one group of scientists, and as an imperative of that law and those prop- erties according to the belief of others. Chemical matter is postulated to have been capable of organizing itself out of disorder by channeling exergonic geochemical reactions into reaction networks that had a dynamic structure with kinetic (as opposed to thermodynamic) stability and were driven by autocatalytic molecular replication cycles. The postulate implicates that such chemical systems eventually became self-sustaining (capable of exploit- ing environmental sources for reconstituting itself), adaptive (capable of reacting to physical or chemical changes in the environment such that sur- vival as a system is maintained) and – by operating in compartments – capa- ble of evolving. From this perspective, life’s origin is seen as a seamless tran- sition from self-ordering chemical reactions to self-sustaining chemical sys- tems that are capable of Darwinian evolution [1]. Figure 1 delineates – in terms of a ‘conceptual cartoon’ – such a programmatic view in more detail. Evidence from paleontology, biology, geology and planetary science posits the appearance of life on Earth into a period of 3 to 4 billion years ago.