...Unit One: Biochemistry Organic chemistry: chemistry of carbon based molecules * Life on our planet is carbon based * All life is carbon based, so to understand how biological processes occur we need to consider organic chemistry Hydrocarbons: molecules that are entirely made from carbon and hydrogen * Carbon you can get a lot of shape (rings etc) * Mostly non-metals (hydrogen, carbon, oxygen etc) make up molecules in our cells * Hydrogen, carbon, nitrogen, oxygen make 96% of living organisms however 21 elements found as well * Most of 4% consists of calcium, potassium, phosphorus, sulfur, sodium, chlorine, magnesium Functional Groups * Most functional groups are ionic or strongly polar which makes them very attracted to other ionic or polar molecules * Non polar portions do not attract other molecules so do not help initiate chemical reactions * So, some polar functional groups are strongly attracted to water and so can often be dissolved in the cytosol of the cell, example ethane is hydrocarbon doesn’t have functional group so does not dissolve in water and is gas at room temperature however ethanol has functional group so highly soluble in water Carbon Chemistry * Because it has has 4 electrons in shell so can form 4 covalent bonds to form these shapes * Can form bonds with others but can also bind with each other * Carbon containing rings can join to make polymers Dehydration and Hydrolysis...
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...microscopic particles together. In the case of molecules whose atoms are connected by covalent bonds, such intermolecular forces may be of three types. All molecules are attracted together by weak London forces. These depend on instantaneous polarization and increase in strength with the size of the molecular electron cloud. When a molecule contains atoms whose electronegativities differ significantly and the resulting bond dipoles do not cancel each other’s effects, dipole forces occur. This results in higher melting and boiling points than for nonpolar substances. The third type of intermolecular force, the hydrogen bond, occurs when one molecule contains a hydrogen atom connected to a highly electronegative partner. The other molecule must contain an electronegative atom, like fluorine, oxygen, or nitrogen, which has a lone pair. Although each hydrogen bond is weak compared with a covalent bond, large numbers of hydrogen bonds can have very significant effects. One example of this is in the properties of water. This highly unusual liquid plays a major role in making living systems and the earth’s environment behave as they do. Carbon normally forms four bonds, and carbon-carbon bonds are quite strong, allowing formation of long chains to which side branches and a variety of functional groups may be attached. Hence the number of molecular structures which can be adopted by organic compounds is extremely large. Functional groups containing oxygen atoms, nitrogen atoms, and multiple...
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...Centre for Foundation Studies, UTAR Chapter Scopes FHSC1124 Organic Chemistry Alkanes • IUPAC Nomenclature / naming of aliphatic alkanes and cycloalkanes • Physical properties • Combustion reactions • Free-radical substitution reactions & mechanism • Crude oil and “cracking” Chapter 2 Introduction to Alkanes IUPAC Nomenclature • Simplest member of hydrocarbon family • General formula of alkanes = CnH2n+2 • Alkanes = Paraffins (hydrocarbons with general formula CnH2n+2) • Aliphatic compounds: open chain / acyclic compounds • The names of alkanes end with suffix -ane. • Saturated hydrocarbon: only have C−C & C−H single bonds & contain the maximum possible number of H per C. 3 IUPAC Rules 1. Select the longest continuous C chain as parent chain (use root word for the no. of C) 2. Name each of the branch/substituents as an alkyl / aryl group 3. Number the C chain beginning from the end nearest to the branch ⇒ branch/substituents appear at the lowest no. possible FHSC1124 ORGANIC CHEMISTRY • IUPAC International Union of Pure & Applied Chemistry • The IUPAC nomenclature system is a set of logical rules devised and used by organic chemists to name the organic compounds. Prefix − Parent − Suffix What are the How many What family? substituents? carbons? IUPAC Rules 4. Name each substituent according to its chemical identity & the no. of the C atom to which it is attached ⇒ For identical substituent, use the prefix ...
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...AS/A Level GCE GCE Chemistry A OCR Advanced Subsidiary GCE in Chemistry A H034 OCR Advanced GCE in Chemistry A H434 Vertical black lines indicate a significant change to the previous printed version. © OCR 2008 version 2 – February 2008 QAN 500/2425/5 QAN 500/2347/0 Contents 1 About these Qualifications 1.1 1.2 1.3 1.4 1.5 The Three-Unit AS The Six-Unit Advanced GCE Qualification Titles and Levels Aims Prior Learning/Attainment 4 4 4 5 5 5 2 Summary of Content 2.1 2.2 AS Units A2 Units 6 6 7 3 Unit Content 3.1 3.2 3.3 3.4 3.5 3.6 AS Unit F321: Atoms, Bonds and Groups AS Unit F322: Chains, Energy and Resources AS Unit F323: Practical Skills in Chemistry 1 A2 Unit F324: Rings, Polymers and Analysis A2 Unit F325: Equilibria, Energetics and Elements A2 Unit F326: Practical Skills in Chemistry 2 8 8 20 38 40 51 62 4 Schemes of Assessment 4.1 4.2 4.3 4.4 4.5 4.6 4.7 4.8 AS GCE Scheme of Assessment Advanced GCE Scheme of Assessment Unit Order Unit Options (at AS/A2) Synoptic Assessment (A Level GCE) Assessment Availability Assessment Objectives Quality of Written Communication 64 64 65 66 66 66 67 67 68 5 Technical Information 5.1 5.2 5.3 5.4 5.5 5.6 5.7 5.8 5.9 Making Unit Entries Making Qualification Entries Grading Result Enquiries and Appeals Shelf-life of Units Unit and Qualification Re-sits Guided Learning Hours Code of Practice/Subject Criteria/Common Criteria Requirements Arrangements for Candidates with Particular...
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...Review Biology Test #1 Chapter 3: Water and life • Polar covalent bonds in water result in Hydrogen bonding between the molecules. These bonds give water its special properties • In presence of water, ionic bonds are weak and covalent bonds are strong. Without water, ionic bonds are stronger. • Each water molecule can make 4 hydrogen bonds. • Water properties: 1. Polarity 2. Surface tension 3. Cohesion 4. Adhesion 5. Capilarity 6. High specific heat 7. Heat bank 8. Heat of vaporization allows evaporation cooling. 9. Abundant and versatile solvent 10. Solid is less dense than liquid 11. It is a reactant and a product in many biological reactions (Photosynthesis, dehydration reaction, hydrolysis…) 12. It can ionize into H3O+ and OH- • When substances dissolve in water, water molecules form hydration shells by breaking their attractions to other water molecules and attracting to the solvate particles. • The dissociation of water molecules into Hydronium and hydroxide ions is a reversible reaction that occurs in a state of equilibrium (pure water). • The concentration of each ion in pure water is 10-7 M. [OH-][H3O+] = 10-14 M. This way, whenever we know the concentration of one ion, we can calculate the concentration of the other. • Adding acids and bases can change these concentrations of ions in water • When acids dissolve in water, they donate H+, increasing the concentration of hydrogen ions. This results in an acidic solution • When bases dissolve in water...
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...POINT LISAS CAMPUS Esperanza Road, Brechin Castle, Couva www.utt.edu.tt LAB 1 Decomposition reaction Aim: Determination of the number of moles of water molecules of crystallization present in hydrated Magnesium Sulphate (MgSO4.xH2O) Apparatus: Mass balance, test tube, test tube holder, heat-proof mat and bunsen burner. Reagents: Hydrated sodium carbonate. Theory: Chemical decomposition, analysis or breakdown is the separation of a chemical compound into elements or simple compounds. A more specific type of decomposition is thermal decomposition or thermolysis, which is caused by heat. ABA+B, the reaction is endothermic, since heat is required to break the chemical bonds. Most decomposition reaction require energy either in the form of heat, light or electricity. Absorption of energy causes the breaking of the bonds present in the reacting substance which decomposes to give the product. When a hydrated salt is heated it decomposes into a pure form of the salt and water. MgSO4.xH2O MgSO4 + H2O Procedure: Refer to Handout Results: A. Mass of test tube/g = 21.77 B. Mass of the tube and salt/g = 24.0 A table showing the mass of the test tube and salt after 3 consecutive heating: Heating | Mass of the test tube and salt/g | 1st | 23.96 | 2nd | 23.81 | 3rd | 23.81 | Calculations: G. Mass of anhydrous magnesium sulphate/g = F - A = 23.81 – 21.77= 2.04 H. Mass of water of crystallization evaporated/g...
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...2.3 Chemistry of water Water is a polar molecule The shape of a water molecule and its polarity make hydrogen bonding possible, A hydrogen bond is a weak attraction between a slightly positive hydrogen atom and a slightly negative atom. (They are partial charging) * Can occur between atoms of different molecule or within the same molecule * A single hydrogen bond is easily broken while multiple hydrogen bonds are collectively quite strong. * Help to maintain the proper structure and function of complex molecules such as proteins and DNA. Oxygen attracts the shared electric and is partially negative Hydrogens are partially positive. Properties of water * Water molecules cling together because of hydrogen bonding * This association gives water many of its unique chemical properties * Water has a high heat capacity * The presence of many hydrogen bonds allow water to absorb a large amount of thermal heat without a great change in temperature * The temperature of water rises and falls slowly * Allows organisms to maintain internal temperatures. * Water has a high heat of vaporization * Hydrogen bonds must be broken to evaporate water. * Bodies of organism cool when their heat is used to evaporate water. * Water is a good Solvent * Water is good solvent because of its polarity * Polar substances dissolve readily in water * Hydrophilic molecules dissolve in water (sugar) ...
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...Introduction, Chemistry and Molecules Introductory Concepts for Studying Biology & Science • Chapter 1 What is science? • Knowledge gained through careful observation, experimentation and reasoning. • Science is: – Explanatory – Testable – Reproducible – Predictive – Tentative Questions of Science Scientific discoveries create complex questions: – Ex. Atom – Should scientists be free to pursue any research? • Cloning/Stem cell. – Should government control scientific progress? – Progression of science. • Research normally follows a logical progression. • Interest focuses on problems that impact humanity. The Importance of Publication • Results of research are submitted for publication. – peer review by other scientists. • Publication and peer review establish the legitimacy of scientific progress. What is a Hypothesis? • A tentative statement that proposes a possible explanation to some phenomenon or event. – A useful hypothesis is a testable statement which may include a prediction. – Stated simply and concisely • At the end of your experiment you will accept it or reject it. Hypothesis-based science • Pose and test hypotheses – Hypothesis-based science involves • • Observations, questions, hypotheses as tentative answers to questions Deductions lead to predictions, and then tests of predictions to see if a hypothesis is falsifiable. Scientific Method. • – In experiments designed to test hypotheses • The use of control groups and experimental...
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...Organic Chemistry Second Edition The INSTANT NOTES series Series Editor: B.D. Hames School of Biochemistry and Molecular Biology, University of Leeds, Leeds, UK Animal Biology 2nd edition Biochemistry 2nd edition Bioinformatics Chemistry for Biologists 2nd edition Developmental Biology Ecology 2nd edition Immunology 2nd edition Genetics 2nd edition Microbiology 2nd edition Molecular Biology 2nd edition Neuroscience Plant Biology Chemistry series Consulting Editor: Howard Stanbury Analytical Chemistry Inorganic Chemistry 2nd edition Medicinal Chemistry Organic Chemistry 2nd edition Physical Chemistry Psychology series Sub-series Editor: Hugh Wagner Dept of Psychology, University of Central Lancashire, Preston, UK Psychology Forthcoming titles Cognitive Psychology Physiological Psychology Organic Chemistry Second Edition G. L. Patrick Department of Chemistry and Chemical Engineering, Paisley University, Paisley, Scotland This edition published in the Taylor & Francis e-Library, 2005. "To purchase your own copy of this or any of Taylor & Francis or Routledge's collection of thousands of eBooks please go to www.eBookstore. tandf.co.uk.” © Garland Science/BIOS Scientific Publishers, 2004 First published 2000 Second edition published 2004 All rights reserved. No part of this book may be reproduced or transmitted, in any form or by any means, without permission. A CIP catalogue record for this book is available from the British Library. ISBN 0-203-42761-0 Master e-book...
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...Volume 38 Number 5 May 2014 Pages 1811–2146 NJC New Journal of Chemistry www.rsc.org/njc A journal for new directions in chemistry Themed issue: Advanced complex inorganic nanomaterials ISSN 1144-0546 PERSPECTIVE Pascal Van Der Voort et al. Vanadium metal–organic frameworks: structures and applications NJC PERSPECTIVE Published on 04 November 2013. Downloaded by American University of Beirut on 07/11/2014 07:39:04. View Article Online View Journal | View Issue Cite this: New J. Chem., 2014, 38, 1853 Vanadium metal–organic frameworks: structures and applications Pascal Van Der Voort,*a Karen Leus,a Ying-Ya Liu,a Matthias Vandichel,b Veronique Van Speybroeck,b Michel Waroquierb and Shyam Biswasa This perspective review paper describes the V-containing metal–organic frameworks that have been developed since the first systematic reports on MOFs almost 15 years ago. These hybrid crystalline materials, containing V(III) or V(IV) as metal nodes, show interesting behavior in oxidation catalysis and gas sorption. A significant amount of papers has appeared on the use of these structures in gas (hydrocarbon, CO2) separation. Promising future research and development of V-MOFs is suggested. Received (in Montpellier, France) 20th September 2013, Accepted 1st November 2013 DOI: 10.1039/c3nj01130e www.rsc.org/njc Introduction While MOFs based on divalent metals (Zn2+, Cu2+) have received much attention in the literature, fewer papers have appeared on...
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...Properties of Bulk Matter Thermodynamics Behaviour of Perfect Gas and Kinetic Theory Oscillations and Waves CLASS XII Electrostatics Current Electricity Magnetic Effects of Current and Magnetism Electromagnetic Induction and Alternating Currents Electromagnetic Waves Optics Dual Nature of Matter and Radiation Atoms and Nuclei Electronic Devices CHEMISTRY S.No. 1. 2. 3. 4. 5. 6. 7. 8. 9. 10. 11. 12. 13. 14. 15. 16. CLASS XI Some Basic Concepts of Chemistry Structure of Atom Classification of Elements and Periodicity in Properties Chemical Bonding and Molecular Structure States of Matter: Gases and Liquids Thermodynamics Equilibrium Redox Reactions Hydrogen s-Block Element (Alkali and Alkaline earth metals) Some p-Block Elements Organic Chemistry- Some Basic Principles and Techniques Hydrocarbons Environmental Chemistry CLASS XII Solid State Solutions Electrochemistry Chemical Kinetics Surface Chemistry General Principles and Processes of Isolation of Elements p- Block Elements d and f Block Elements Coordination Compounds Haloalkanes and Haloarenes Alcohols, Phenols and Ethers Aldehydes, Ketones and Carboxylic Acids Organic Compounds Containing Nitrogen Biomolecules Polymers...
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...and Properties (9 hrs) Unit 3 – Conformation of Proteins (9 hrs) Unit 4 – Principles and Approach (9 hrs) Unit 5 – Probing Structure for Molecular Recognition (9 hrs) 3 Unit 1 Introduction (9 hrs) Amino acid structure and properties Detection of the size of proteins Covalent structures in proteins Overview of chemical and biosynthesis of proteins Topogenesis Post-translational covalent modification of polypeptide chains 4 Amino Acids Amino acids are molecules containing an amine group, a carboxylic acid group, and a side-chain that is specific to each amino acid The amino group is attached to the carbon atom immediately adjacent to the carboxylate group (the α– carbon ) In some amino acids, the amino group is attached to a different carbon atom; for example, in gamma-amino acids (such as gamma-amino-butyric acid) the carbon atom to which the amino group attaches is separated from the carboxylate group by two other carbon atoms The various alpha-amino acids differ in their side-chains (Rgroup) that is attached to their alpha carbon,...
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...black. Birds, bats, and butterflies all have wings. When a dog feels hot, it hangs it tongue out and pants. Question 2 1 / 1 pts Without this part of an experiment, a scientist would have no way of knowing if the treatment worked or not: Control group The control group is not subjected to the experimental treatment, thus, if there is a significant change in the test group but not the control group, then the treatment worked. Hypothesis Conclusion Observation Testing Question 3 1 / 1 pts Which of the following is not considered a basic theory of biology? Gene Ecosystem Cell Homeostasis The notch is an adaptation for feeding on shrubs. an experimental variable. a species. Question 7 1 / 1 pts Which of the following levels of taxonomy is the least inclusive? Class Order Family Genus The levels of taxonomy are, from most to least inclusive: domain, kingdom, phylum, class, order, family, genus, and species. Phylum Question 8 1 / 1 pts A possible explanation for a natural event is known as Atomic Atomic theory is a basic theory of chemistry and physics, not biology. Question 4 1 / 1 pts While examining a drop of pond water under the...
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...Dyes: Fine Structures in Their Absorption Spectra Anna Zarow and Yeung-gyo Shin Department of Chemistry/Physics Kean University 1000 Morris Avenue Union, New Jersey 07083 USA Received: October 13, 2008 Accepted: May 19, 2009 ABSTRACT Absorption spectra were studied for two series of 3 cyanine dyes with varying length of conjugated hydrocarbon chains. Fine sturctures in absortpiton spectra were analyzed to –8 determine its concentraion dependence as the concentraion of dyes were changed from 10 M to –4 10 M. In all 6 dyes studied, ratios of minor peaks to the major peak remained constant within the experiemntal error. These results indicate that the origin of the absorption fine structure is due to the electronic coupling, an intramolecular process, rather than the aggragates formation, an intermolecular process. I. INTRODUCTION cm‾ . This observation is not accordance with Particle in a Box estimation nor a state of the art computational method [7-9] which predict the absorption spectra of these dyes to be consist of a smooth single peak. One possible explanation of the caused for the splitting is attributed to the ability of the dye molecules to form dimmers or trimers as mentioned in “Experiments in Physical Chemistry”. This explanation is very attractive one since resonance structure prevalent throughout the molecule implies extensive -electron network that forces the molecule to be planar. More recently, vibronic coupling mechanism was used to explain the fine structures...
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...Centre, Department of Materials Cranfield University, United Kingdom the aim of this book series is to disseminate the latest developments in small scale technologies with a particular emphasis on accessible and practical content. these books will appeal to engineers from industry, academia and government sectors. for more information about the book series and new book proposals please contact the publisher, Dr. Nigel hollingworth at nhollingworth@williamandrew.com. http://www.williamandrew.com/MNt NaNotechNology applicatioNs for cleaN Water edited by Nora savage Office of Research and Development, US Environmental Protection Agency and (in alphabetical order) Mamadou Diallo Materials and process simulation center, Division of chemistry and chemical engineering, california institute of technology Jeremiah Duncan Nanoscale Science and Engineering Center, University of Wisconsin-Madison anita street Office of Research and Development, US Environmental Protection Agency and Center of Advanced Materials for the Purification of Water with Systems, University of Illinois at Urbana-Champaign richard sustich N o r w i c h , N Y, U S A copyright © 2009 by William andrew inc. No part of this book may be reproduced or utilized in any form or by any means, electronic or mechanical, including photocopying, recording, or by any information storage and retrieval system, without permission in writing from the publisher. ISBN: 978-0-8155-1578-4 Library of Congress Cataloging-in-Publication...
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