Electronic Transmutation (ET): Chemically Turning One Element
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NBO Applications, 2020
NBO Bibliography 2020 2531 publications – Revised and compiled by Ariel Andrea on Aug. 9, 2021 Aarabi, M.; Gholami, S.; Grabowski, S. J. S-H ... O and O-H ... O Hydrogen Bonds-Comparison of Dimers of Thiocarboxylic and Carboxylic Acids Chemphyschem, (21): 1653-1664 2020. 10.1002/cphc.202000131 Aarthi, K. V.; Rajagopal, H.; Muthu, S.; Jayanthi, V.; Girija, R. Quantum chemical calculations, spectroscopic investigation and molecular docking analysis of 4-chloro- N-methylpyridine-2-carboxamide Journal of Molecular Structure, (1210) 2020. 10.1016/j.molstruc.2020.128053 Abad, N.; Lgaz, H.; Atioglu, Z.; Akkurt, M.; Mague, J. T.; Ali, I. H.; Chung, I. M.; Salghi, R.; Essassi, E.; Ramli, Y. Synthesis, crystal structure, hirshfeld surface analysis, DFT computations and molecular dynamics study of 2-(benzyloxy)-3-phenylquinoxaline Journal of Molecular Structure, (1221) 2020. 10.1016/j.molstruc.2020.128727 Abbenseth, J.; Wtjen, F.; Finger, M.; Schneider, S. The Metaphosphite (PO2-) Anion as a Ligand Angewandte Chemie-International Edition, (59): 23574-23578 2020. 10.1002/anie.202011750 Abbenseth, J.; Goicoechea, J. M. Recent developments in the chemistry of non-trigonal pnictogen pincer compounds: from bonding to catalysis Chemical Science, (11): 9728-9740 2020. 10.1039/d0sc03819a Abbenseth, J.; Schneider, S. A Terminal Chlorophosphinidene Complex Zeitschrift Fur Anorganische Und Allgemeine Chemie, (646): 565-569 2020. 10.1002/zaac.202000010 Abbiche, K.; Acharjee, N.; Salah, M.; Hilali, M.; Laknifli, A.; Komiha, N.; Marakchi, K. Unveiling the mechanism and selectivity of 3+2 cycloaddition reactions of benzonitrile oxide to ethyl trans-cinnamate, ethyl crotonate and trans-2-penten-1-ol through DFT analysis Journal of Molecular Modeling, (26) 2020. -
The Norbornene Mystery Revealed
Supplementary Material (ESI) for Chemical Communications This journal is (c) The Royal Society of Chemistry 2010 Electronic Supporting Information The Norbornene Mystery Revealed Stephan N. Steinmann, Pierre Vogel, Yirong Mo, and Clémence Corminboeuf* To be published in Chemical Communication. The supplementary Data were prepared on June 22, 2010 and contains 14 pages. Contents: Method Section Figure S1: Molecules used for the comparisons between known experimental 1 Jcc-coupling constants (in Hertz) and the computed values. 1 Table S1 JCC-coupling comparison between experiment and computation. 1 Table S2: JCC-coupling constants for all compounds considered. Cartesian coordinates: B3LYP/6-311+G(d,p) (BLW and canonical) optimized structures for all compounds considered in the article. Contents: Computational Details 1 Table S1: JCC-coupling constants for all compounds considered. 1 Figure S1: Molecules for JCC-coupling comparison between experiment and computation. 1 Table S2: JCC-coupling comparison between experiment and computation. B3LYP/6-311+G(d,p) (BLW and canonical) optimized structures for all compounds considered in the article. Computational Details Standard geometries were optimized at the B3LYP1, 2/6-311+G** level using Gaussian 09.3 The BLW- constrained B3LYP/6-311+G** geometries (‘loc’) were optimized using a modified version of GAMESS-US (release 2008)4interfaced with the BLW-module.5, 6 Both the density and the J-coupling constants have been computed at the PBE7/IGLO-III level in Dalton 2.0.8 The BLW-eigenvalues and eigenvectors were optimized at the given DFT level with the SCF module of Dalton, SIRIUS, that has been interfaced with the BLW- module. -
Computational Chemistry for Chemistry Educators Shawn C
Volume 1, Issue 1 Journal Of Computational Science Education Computational Chemistry for Chemistry Educators Shawn C. Sendlinger Clyde R. Metz North Carolina Central University College of Charleston Department of Chemistry Department of Chemistry and Biochemistry 1801 Fayetteville Street, 66 George Street, Durham, NC 27707 Charleston, SC 29424 919-530-6297 843-953-8097 [email protected] [email protected] ABSTRACT 1. INTRODUCTION In this paper we describe an ongoing project where the goal is to The majority of today’s students are technologically savvy and are develop competence and confidence among chemistry faculty so often more comfortable using computers than the faculty who they are able to utilize computational chemistry as an effective teach them. In order to harness the student’s interest in teaching tool. Advances in hardware and software have made technology and begin to use it as an educational tool, most faculty research-grade tools readily available to the academic community. members require some level of instruction and training. Because Training is required so that faculty can take full advantage of this chemistry research increasingly utilizes computation as an technology, begin to transform the educational landscape, and important tool, our approach to chemistry education should reflect attract more students to the study of science. this. The ability of computer technology to visualize and manipulate objects on an atomic scale can be a powerful tool to increase both student interest in chemistry as well as their level of Categories and Subject Descriptors understanding. Computational Chemistry for Chemistry Educators (CCCE) is a project that seeks to provide faculty the J.2 [Physical Sciences and Engineering]: Chemistry necessary knowledge, experience, and technology access so that they can begin to design and incorporate computational approaches in the courses they teach. -
Synthesis and Consecutive Reactions of Α-Azido Ketones: a Review
Molecules 2015, 20, 14699-14745; doi:10.3390/molecules200814699 OPEN ACCESS molecules ISSN 1420-3049 www.mdpi.com/journal/molecules Review Synthesis and Consecutive Reactions of α-Azido Ketones: A Review Sadia Faiz 1,†, Ameer Fawad Zahoor 1,*, Nasir Rasool 1,†, Muhammad Yousaf 1,†, Asim Mansha 1,†, Muhammad Zia-Ul-Haq 2,† and Hawa Z. E. Jaafar 3,* 1 Department of Chemistry, Government College University Faisalabad, Faisalabad-38000, Pakistan, E-Mails: [email protected] (S.F.); [email protected] (N.R.); [email protected] (M.Y.); [email protected] (A.M.) 2 Office of Research, Innovation and Commercialization, Lahore College for Women University, Lahore-54600, Pakistan; E-Mail: [email protected] 3 Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, Serdang-43400, Selangor, Malaysia † These authors contributed equally to this work. * Authors to whom correspondence should be addressed; E-Mails: [email protected] (A.F.Z.); [email protected] (H.Z.E.J.); Tel.: +92-333-6729186 (A.F.Z.); Fax: +92-41-9201032 (A.F.Z.). Academic Editors: Richard A. Bunce, Philippe Belmont and Wim Dehaen Received: 20 April 2015 / Accepted: 3 June 2015 / Published: 13 August 2015 Abstract: This review paper covers the major synthetic approaches attempted towards the synthesis of α-azido ketones, as well as the synthetic applications/consecutive reactions of α-azido ketones. Keywords: α-azido ketones; synthetic applications; heterocycles; click reactions; drugs; azides 1. Introduction α-Azido ketones are very versatile and valuable synthetic intermediates, known for their wide variety of applications, such as in amine, imine, oxazole, pyrazole, triazole, pyrimidine, pyrazine, and amide alkaloid formation, etc. -
University Microfilms, Inc., Ann Arbor, Michigan MONOMERIC ORGANOSILICON COMPOUNDS
This dissertation has been . micro&hned exactly as received 66-3860 CHAPMAN, Dwain R, 1929- MONOMERIC ORGANOSnJCON COMPOUNDS WITH POLYFUNCTIONAL GROUPS. Iowa State University of Science and Technology Ph.D., 1965 Chemistry, organic University Microfilms, Inc., Ann Arbor, Michigan MONOMERIC ORGANOSILICON COMPOUNDS . WITH POLYPUNCTIONAL GROUPS by Dwain R Chapman A Dissertation Submitted to the Graduate Faculty in Partial Fulfillment of The Requirements for the Degree of DOCTOR OF PHILOSOPHY Major Subject: Organic Chemistry Approved Signature was redacted for privacy. In Chai^ge of Major Work Signature was redacted for privacy. Head of Major Department Signature was redacted for privacy. Iowa State University Of Science and Technology Ames, Iowa 1965 11 TABLE OP CONTENTS' Page INTRODUCTION , 1 NOMENCLATURE 3• HISTORICAL 5 Cyclosilanes 5 Reactions of Cyclosilanes 6 Reactions of the Silicon-Silicon Bond 12 The Ultraviolet Absorption Properties 21 of Polysilanes Heterocyclic Polysilanes 23 . EXPERIMENTAL 28 Preparation of Cyclosilanes 30 Octaphenylcyclotetrasilane. 30 Decaphenylcyclopentasilane (Ila) 31 Dodecamethylcyclohexasilane 32 % Reactions of Octaphenylcyclotetrasilane 33 Octaphenylcyclotetrasilane with 33 , . phosphorus pentachloride In benzene 33 Tn xylene 33 Octaphenylcyclotetrasilane with 34 phosphorus trichloride (attempted). Octaphenylcyclotetrasilane with . 34 chlorine In carbon tetrachloride 34 In ether 34 In petroleum ether (b.p. 60-70 C) 36 In n-pentane 36 In ether containing hydroquinone ' 36 Ill Octaphenylcyclotetrasllane -
Car-Parrinello Molecular Dynamics
CPMD Car-Parrinello Molecular Dynamics An ab initio Electronic Structure and Molecular Dynamics Program The CPMD consortium WWW: http://www.cpmd.org/ Mailing list: [email protected] E-mail: [email protected] January 29, 2019 Send comments and bug reports to [email protected] This manual is for CPMD version 4.3.0 CPMD 4.3.0 January 29, 2019 Contents I Overview3 1 About this manual3 2 Citation 3 3 Important constants and conversion factors3 4 Recommendations for further reading4 5 History 5 5.1 CPMD Version 1.....................................5 5.2 CPMD Version 2.....................................5 5.2.1 Version 2.0....................................5 5.2.2 Version 2.5....................................5 5.3 CPMD Version 3.....................................5 5.3.1 Version 3.0....................................5 5.3.2 Version 3.1....................................5 5.3.3 Version 3.2....................................5 5.3.4 Version 3.3....................................6 5.3.5 Version 3.4....................................6 5.3.6 Version 3.5....................................6 5.3.7 Version 3.6....................................6 5.3.8 Version 3.7....................................6 5.3.9 Version 3.8....................................6 5.3.10 Version 3.9....................................6 5.3.11 Version 3.10....................................7 5.3.12 Version 3.11....................................7 5.3.13 Version 3.12....................................7 5.3.14 Version 3.13....................................7 5.3.15 Version 3.14....................................7 5.3.16 Version 3.15....................................8 5.3.17 Version 3.17....................................8 5.4 CPMD Version 4.....................................8 5.4.1 Version 4.0....................................8 5.4.2 Version 4.1....................................8 5.4.3 Version 4.3....................................9 6 Installation 10 7 Running CPMD 11 8 Files 12 II Reference Manual 15 9 Input File Reference 15 9.1 Basic rules........................................ -
Ab Initio Search for Novel Bxhy Building Blocks with Potential for Hydrogen Storage
Utah State University DigitalCommons@USU All Graduate Theses and Dissertations Graduate Studies 12-2010 Ab Initio Search for Novel BxHy Building Blocks with Potential for Hydrogen Storage Jared K. Olson Utah State University Follow this and additional works at: https://digitalcommons.usu.edu/etd Part of the Physical Chemistry Commons Recommended Citation Olson, Jared K., "Ab Initio Search for Novel BxHy Building Blocks with Potential for Hydrogen Storage" (2010). All Graduate Theses and Dissertations. 844. https://digitalcommons.usu.edu/etd/844 This Dissertation is brought to you for free and open access by the Graduate Studies at DigitalCommons@USU. It has been accepted for inclusion in All Graduate Theses and Dissertations by an authorized administrator of DigitalCommons@USU. For more information, please contact [email protected]. AB INITIO SEARCH FOR NOVEL BXHY BUILDING BLOCKS WITH POTENTIAL FOR HYDROGEN STORAGE by Jared K. Olson A dissertation submitted in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in Chemistry (Physical Chemistry) Approved: Dr. Alexander I. Boldyrev Dr. Steve Scheiner Major Professor Committee Member Dr. David Farrelly Dr. Stephen Bialkowski Committee Member Committee Member Dr. T.C. Shen Byron Burnham Committee Member Dean of Graduate Studies UTAH STATE UNIVERSITY Logan, Utah 2010 ii Copyright © Jared K. Olson 2010 All Rights Reserved iii ABSTRACT Ab Initio Search for Novel BxHy Building Blocks with Potential for Hydrogen Storage by Jared K. Olson, Doctor of Philosophy Utah State University, 2010 Major Professor: Dr. Alexander I. Boldyrev Department: Chemistry and Biochemistry On-board hydrogen storage presents a challenging barrier to the use of hydrogen as an energy source because the performance of current storage materials falls short of platform requirements. -
Standard Thermodynamic Properties of Chemical
STANDARD THERMODYNAMIC PROPERTIES OF CHEMICAL SUBSTANCES ∆ ° –1 ∆ ° –1 ° –1 –1 –1 –1 Molecular fH /kJ mol fG /kJ mol S /J mol K Cp/J mol K formula Name Crys. Liq. Gas Crys. Liq. Gas Crys. Liq. Gas Crys. Liq. Gas Ac Actinium 0.0 406.0 366.0 56.5 188.1 27.2 20.8 Ag Silver 0.0 284.9 246.0 42.6 173.0 25.4 20.8 AgBr Silver(I) bromide -100.4 -96.9 107.1 52.4 AgBrO3 Silver(I) bromate -10.5 71.3 151.9 AgCl Silver(I) chloride -127.0 -109.8 96.3 50.8 AgClO3 Silver(I) chlorate -30.3 64.5 142.0 AgClO4 Silver(I) perchlorate -31.1 AgF Silver(I) fluoride -204.6 AgF2 Silver(II) fluoride -360.0 AgI Silver(I) iodide -61.8 -66.2 115.5 56.8 AgIO3 Silver(I) iodate -171.1 -93.7 149.4 102.9 AgNO3 Silver(I) nitrate -124.4 -33.4 140.9 93.1 Ag2 Disilver 410.0 358.8 257.1 37.0 Ag2CrO4 Silver(I) chromate -731.7 -641.8 217.6 142.3 Ag2O Silver(I) oxide -31.1 -11.2 121.3 65.9 Ag2O2 Silver(II) oxide -24.3 27.6 117.0 88.0 Ag2O3 Silver(III) oxide 33.9 121.4 100.0 Ag2O4S Silver(I) sulfate -715.9 -618.4 200.4 131.4 Ag2S Silver(I) sulfide (argentite) -32.6 -40.7 144.0 76.5 Al Aluminum 0.0 330.0 289.4 28.3 164.6 24.4 21.4 AlB3H12 Aluminum borohydride -16.3 13.0 145.0 147.0 289.1 379.2 194.6 AlBr Aluminum monobromide -4.0 -42.0 239.5 35.6 AlBr3 Aluminum tribromide -527.2 -425.1 180.2 100.6 AlCl Aluminum monochloride -47.7 -74.1 228.1 35.0 AlCl2 Aluminum dichloride -331.0 AlCl3 Aluminum trichloride -704.2 -583.2 -628.8 109.3 91.1 AlF Aluminum monofluoride -258.2 -283.7 215.0 31.9 AlF3 Aluminum trifluoride -1510.4 -1204.6 -1431.1 -1188.2 66.5 277.1 75.1 62.6 AlF4Na Sodium tetrafluoroaluminate -
Surface Modification of Mgni by Perylene
Materials Transactions, Vol. 43, No. 11 (2002) pp. 2711 to 2716 Special Issue on Protium New Function in Materials c 2002 The Japan Institute of Metals Surface Modification of MgNi by Perylene Tiejun Ma, Yuji Hatano, Takayuki Abe and Kuniaki Watanabe Hydrogen Isotope Research Center, Toyama University, Toyama 930-8555, Japan Amorphous MgNi was modified by ball milling with perylene and its effects on the charge/discharge capacity were examined by using a conventional two-electrode cell. It was found that both the ball milling time and perylene/MgNi ratio had great influence on the discharge capacity and cycle life of MgNi. Three types of effects were identified, depending on ball-milling conditions. One of them was the increase in the discharge capacity at the first cycle, the second type was the deceleration of the degradation of the discharge capacity with charge/discharge cycle, and the last type was the reduction in the charge/discharge capacity. Chemical states of modified surfaces were analyzed by Auger electron spectroscopy (AES) as well as ab-inito calculation. Both AES and ab-initio calculations indicated that carbon atoms can form bonding with both magnesium and nickel atoms, but bonding with magnesium atoms is most preferable. The change in the charge/discharge capacity is attributed to such kind of reactions, and the three distinct effects are ascribed to the presence of different MgNi-perylene composites, formed during the ball milling on the surface, resulting in the retardation or acceleration of Mg(OH)2 formation on the electrode. (Received May 20, 2002; Accepted July 16, 2002) Keywords: magnesium, nickel, aromatic compound, surface modification, battery, electrode 1. -
Application of Hartree-Fock Method for Modeling of Bioactive Molecules Using SAR and QSPR
Computational Molecular Bioscience, 2014, 4, 1-24 Published Online March 2014 in SciRes. http://www.scirp.org/journal/cmb http://dx.doi.org/10.4236/cmb.2014.41001 Application of Hartree-Fock Method for Modeling of Bioactive Molecules Using SAR and QSPR Cleydson B. R. Santos1,2,3*, Cleison C. Lobato1, Francinaldo S. Braga1, Sílvia S. S. Morais4, Cesar F. Santos1, Caio P. Fernandes1,3, Davi S. B. Brasil1,5, Lorane I. S. Hage-Melim1, Williams J. C. Macêdo1,2, José C. T. Carvalho1,2,3 1Laboratory of Modeling and Computational Chemistry, Federal University of Amapá, Macapá, Brazil 2Postgraduate Program in Biotechnology and Biodiversity-Network BIONORTE, Campus Universitário Marco Zero, Macapá, Brazil 3Laboratory of Drug Research, School of Pharmaceutical Sciences, Federal University of Amapá, Macapá, Brazil 4Laboratory of Statistical and Computational Modeling, University of the State of Amapá, Macapá, Brazil 5Institute of Technology, Federal University of Pará, Belém, Brazil Email: *[email protected] Received 12 January 2014; revised 12 February 2014; accepted 20 February 2014 Copyright © 2014 by authors and Scientific Research Publishing Inc. This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/ Abstract The central importance of quantum chemistry is to obtain solutions of the Schrödinger equation for the accurate determination of the properties of atomic and molecular systems that occurred from the calculation of wave functions accurate for many diatomic and polyatomic molecules, us- ing Self Consistent Field method (SCF). The application of quantum chemical methods in the study and planning of bioactive compounds has become a common practice nowadays. -
Bringing Open Source to Drug Discovery
Bringing Open Source to Drug Discovery Chris Swain Cambridge MedChem Consulting Standing on the shoulders of giants • There are a huge number of people involved in writing open source software • It is impossible to acknowledge them all individually • The slide deck will be available for download and includes 25 slides of details and download links – Copy on my website www.cambridgemedchemconsulting.com Why us Open Source software? • Allows access to source code – You can customise the code to suit your needs – If developer ceases trading the code can continue to be developed – Outside scrutiny improves stability and security What Resources are available • Toolkits • Databases • Web Services • Workflows • Applications • Scripts Toolkits • OpenBabel (htttp://openbabel.org) is a chemical toolbox – Ready-to-use programs, and complete programmer's toolkit – Read, write and convert over 110 chemical file formats – Filter and search molecular files using SMARTS and other methods, KNIME add-on – Supports molecular modeling, cheminformatics, bioinformatics – Organic chemistry, inorganic chemistry, solid-state materials, nuclear chemistry – Written in C++ but accessible from Python, Ruby, Perl, Shell scripts… Toolkits • OpenBabel • R • CDK • OpenCL • RDkit • SciPy • Indigo • NumPy • ChemmineR • Pandas • Helium • Flot • FROWNS • GNU Octave • Perlmol • OpenMPI Toolkits • RDKit (http://www.rdkit.org) – A collection of cheminformatics and machine-learning software written in C++ and Python. – Knime nodes – The core algorithms and data structures are written in C ++. Wrappers are provided to use the toolkit from either Python or Java. – Additionally, the RDKit distribution includes a PostgreSQL-based cartridge that allows molecules to be stored in relational database and retrieved via substructure and similarity searches. -
The Synthesis of Kinetically Stabilised Heavy Group 13 Hydride Complexes
The Synthesis of Kinetically Stabilised Heavy Group 13 Hydride Complexes Thesis as partial fulfilment of the requirements of Doctor of Philosophy (Chemistry) by Alasdair Iain McKay (Student Number: 3188803) Supervisor: Assoc. Prof. Marcus L. Cole School of Chemistry The University of New South Wales Sydney, Australia 16th April 2015 Certificate of Originality ‘I, Alasdair Iain McKay, hereby declare that this submission is my own work and to the best of my knowledge it contains no materials, previously published or written by another person, or substantial proportions of material which have been accepted for the award of any other degree or diploma at UNSW or any other educational institution, except where due acknowledgement is made in the thesis. Any contribution made to the research by others, with whom I have worked at UNSW or elsewhere, is explicitly acknowledged in the thesis. I also declare that the intellectual content of this thesis is the product of my own work, except to the extent that assistance from others in the projects’ design and conception or in style, presentation and linguistic expression is acknowledged.’ Signed........................................................... Date.............................................................. ii Table of Contents Acknowledgements ix Abstract x Abbreviations xi Chapter One: General Introduction 1 1.1 Group 13 Element Structure 1 1.2 Group 13 Metal Hydrides 3 1.2.1 Bonding and Structure in Group 13 Trihydrides 4 1.2.2 The Thermodynamics of Group 13 Hydrides 5 1.2.3 Lewis Base