Organic Chemistry Chapters 1-4 – Flashcards
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Acid
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according to the Arrhenius definition, a substance that ionizes in water to produce protons. According to Bronsted-Lowry definition, a substance that donates a proton to some other substance. According to the lewis definition, an electron-pair acceptor
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Acidity Constant
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Ka: Equilibrium constant for dissociation of an acid. Ka= ([H+][A-])/[HA]
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Activation Energy (Eact)
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1. the minimum energy that a reacting system must process above its most stable state in order to undergo a chemical or structural change 2. extra energy needed to get a reaction started: -destabilizes existing (weakened) chemical bonds -required even for exergenic reactions
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Active Site
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region of the enzyme that binds to the substrate
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Alcohols
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compound of the type ROH
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Alkanes
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Hydrocarbon in which all the bonds are single bonds. Alkanes have the general formula CnH2n+2
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Alkenes
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Hydrocarbon that contains a carbon-carbon double bond (C=C); also known by the older name olefin
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Alkyl Group
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Structural unit related to a alkane by replacing one of the hydrogens by a potential point of attachment to some other atom or group. The group symbol for an alkyl group is K-
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Alkyl Halides
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compound is a halogen substituent (F, Cl, Br, I)
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Alkyloxonium IOn (ROH2+)
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positive ion of the type ROH2+
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Alkynes
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Hydrocarbon that contains a Carbon-Carbon triple bond
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Amino Acid Structure
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has central carbon, amino group, carboxyl group, single hydrogen, and variable R group
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Angle Strain
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the strain a molecule possesses because its bond angles are distorted from their normal values
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Anti
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term describing relative position of 2 substituents on adjacent atoms when the angle between their bonds is on the order of 180 degrees.
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Antibonding Orbital
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an orbital in a molecule in which an e- is less stable when located on an isolated atom.
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Arenes
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aromatic hydrocarbon often abbreviated ArH
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Atomic Number
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the number of protons in the nucleus of a particular atom. the symbol for atomic number is Z, and each element has a unique atomic number
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Atoms
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the fundamental elements of matter
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Attractions
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the electric or magnetic force that acts between oppositely charged bodies, tending to draw them together
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Axial Bond
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a bond to a carbon in te chair conformation of cyclohexane oriented like the six "up-and-down" bonds
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Base
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according to the Arrhenius definition, a substance that ionizes in water to produce hydroxide ions. According to Bronsted-Lowry definition, a substance that accepts a proton from some suitable donor. According to the Lewis definition, and electron pair donor.
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Basic Constant Kb
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a measure of base strength, especially of amines Kb= ([R3NH+][HO-])/9[R3N]
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Bio molecular
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a process which two particles react in same elementary step
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Boat Conformation
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an unstable conformation of cyclohexane
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Bond Dipole Moments
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The dipole moment of a bond between two atoms
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Bond Dissociaition Enthalpy (D)
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For substance A:B, the energy required to break the bond between A and B so that each retains one of the electrons in the bond
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Bond-Line Formula
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Formula which connections between carbons are shown but individual carbons and hydrogens are not.
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Bonding Orbital
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an orbital in molecule in which an e- is more stable than when localized on an isolated atom. All the bonding orbitals are normally doubly occupied in stable neutral molecules
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Bond Strength
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the strength with which a chemical bond holds two atoms together; conventionally measured in terms of the amount of energy, in kilocalories per mole, required to break the bond
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Boundary Surfaces
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the surface that encloses the region where the probability of finding an electron is high (90-95%)
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Bridged Compound
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a compound in which two non-adjacent atoms are common to two or more rings
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Carbocation
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positive ion in which the charge resides on carbon. an example is tert-butyl cation, (CH3)3C+. Carbocations are unstable species that, though they cannot normally be isolated, are believed to be intermediates in certain reactions
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Carbon Skeletal Diagram
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synonymous with bond-line formula
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Chain (reaction)
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reaction mechanism in which a sequence of individual steps repeats itself many times usually because a reactive intermediate consumed in one step is regenerated in a subsequent step. The halogenation of alkenes is a chain reaction proceeding via free-radical intermediates
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Chain-Terminating Steps
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a chemical reaction that stops further growth of a polymer chain
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Chair-Chair inter conversion
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synonymous with ring inversion of cyclohexane and related compounds
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Chair Conformation
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the most stable conformation of cyclohexane
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Chemical Bond
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a connection between atoms
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Chemical Bonds
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when atoms with opposite charges attract, atoms are shared, or any other way to interact
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Cis
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stereochemical prefix indicating that two substituents are on the same side of a ring or double bond (contrast with the prefix trans).
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Combustion
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burning of a substance in the presence of oxygen. All hydro-carbons yield carbon dioxide and water when they undergo combustion
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Compounds
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an assembly of two or more atoms with properties different from the individual
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Concerted Reaction
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reaction that occurs in a single elementary step
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Condensed Formulas
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Structural formula in which subscripts are used to indicate replicated atoms or groups, as in (CH3)2CHCH2CH3
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Conformational Analysis
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study of the conformations available to a molecule, their relatively stable and the role they play in defining the properties of the molecule
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Conformations
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Non-identical representations of a molecule generated by rotation about single bonds
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Conjugate Acid
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the species formed from a Bronsted-base aftr it has accepted a proton
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Conjugate Base
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the species formed from a Bronsted acid after it has donated a proton
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Connectivity
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order in which a molecules' atoms are connected. synonymous with constitution
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Constitutional Isomers
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isomers that differ in respect to the order inwhich the atoms are connected. Butane (CH3CH2CH2CH3) and isobutan [CCH3)3CH] are constitutional isomers
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Contributing Structures
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the various resonance structures that can be written for a molecule
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Coulombic Attraction
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the electrical attraction between opposite charges
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Covalent
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of, relating to, or denoting chemistry bonds formed by the sharing of e- between atoms
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Covalent Bonding
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1. chemical bond between two atoms that results from their sharing of two electrons 2. Form when two atoms share one or more pairs of valence electrons
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Cracking
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a key step in petroleum refining in which high-molecular-weight hydro carbons are converted to lower molecular-weight ones by thermal or catalytic carbon-carbon bond cleavage
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Curved Arrows
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arrows that show the direction of electron flow in chemical reactions; also used to show differences in electron placement between resonance forms
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Cycloalkanes
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an alkane in which a ring of carbon atoms is present
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Debye Unit (D)
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unit customary used for measuring dipole moments 1D=1x10^-18 esu*em
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Delocalized
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association of an electron with more than one atom. the simplest example is the shared electron pair (covalent) bond. Delocalization is important in conjugated pi electron systems, where an electron maybe associated with several carbon atoms
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1,3- Diaxial Repulsions
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repulsive forces between axial substituents on the same side of a cyclohexane ring
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Dipole-Dipole
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(includes hydrogen bonding) -attractive forces between the (+) end of one polar molecule and (-) end of another polar molecule
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Dipole/Induced Dipole
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weak attraction that results when a polar molecule induces a dipole in an atom or in a non-polar molecule by disturbing the arrangement of e- in the non-polar species
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Dipole Moment (mu)
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product of the attractive force between two opposite charges and teh distance between them. Dipole moment has the symbol mu and is measured in Debye units (D)
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Double Bond
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Bond formed by the sharing of four electrons between two atoms
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Eclipsed Conformation
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conformation in which bonds on adjacent atoms are aligned with one another
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Electron Affinity
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energy change associated with the capture of an electron by an atom
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Electron Configuration
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the arrangement of e- in the orbitals of an atom or molecule
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Electronegativity
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a measure of the ability of an atom to attract the electrons in a covalent bond toward itself, Flourine is the most electronegative element
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Electrophiles
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a species (ion/compound) that can act as a Lewis acid, or electron pair acceptor; an "electron seeker". Carbocations are one type
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Electrophilic Addition
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mechanism of addition in which the species that first reacts with the multiple bond is an electrophile
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Electrostatic Attraction
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force of attraction between oppositely charged particles
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Electrostatic Potential Map
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the charge distribution in a molecule represented by mapping the interaction energy of a point positive charge with the molecule's electric field on the van der Waals surface
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Elementary Step
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a step in an ion mechanism in which each species shown in the equation for this step participates in the same transition state. Characterized by single transition state.
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Endergonic Reaction
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a reaction requiring an input of energy (change in) G is positive -products contain more free energy than reactants
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Endothermic
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term describing process/reaction that absorbs heat
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Enthalpy
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the heat content of a substance; symbol H
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Entropy
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disorder in the universe
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Envelope
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one of the two most stable conformations of cyclopentane. four of the carbons in the envelope conformation are coplanar; the fifth carbon lies above or below this plane
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Equatorial Bond
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a bond to a carbon in the chair conformation of cyclohexane oriented approximately along the equator of the molecule.
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Exergonic Reaction
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a reaction that releases free energy (change in) G is negative -tend to proceed spontaneously -products contain less free energy than reactants
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Exothermic
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term describing a reaction process that gives off heat
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First Law of Thermodynamics
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-energy cannot be created or destroyed. -energy can be only converted from one form to another
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Formal Charges
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the charge, either +/-, on an atom calculated by subtracting from the number of valance electrons in the neutral atom a number equal to the sum of its unshared electrons plus half the electrons in its covalent bonds
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Free Energy
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the energy available to do work
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Free Radicals
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Neutral species in which one of the e- in the valence shell of carbon unpaired
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Functional Class Nomenclature
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type of IUPAC nomenclature in which compounds are named according to functional group families. the last word in the name identifies the functional group; the first word designates the alkyl or aryl group that bears the functional group. methyl bromide, example
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Functional Group
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an atom or a group of atoms in a molecule responsible for its reactivity under a given set of conditions
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Gauche
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term describing the position relative to each other of two substitutions on adjacent atoms when the angle between their bonds is on the order of 60 degrees.
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Half-Chair
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one of the two most stable conformations of cyclopentane. Three consecutive carbons in the half-chair conformation are coplanar. The 4th/5th carbons lie, respectively, above and below the plane
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Halogenation
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replacement of a hydrogen by a halogen. the most frequently encountered examples are the free radical halogenation of alkanes and the halogenation of arenas by electrophilic aromatic substitution
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Hammond's Postulate
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principle used to deduce the approximate structure of a transition state. If two states such as a transition state and an unstable intermediate derived from it, are similar in energy, they are believed to be similar in structure
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Heat of Combustion
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heat evolved on combustion of a substance. It is the value of -(change in)H degrees for the combustion reaction
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Heteroatoms
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an atom in an organic molecule that is neither carbon nor hydrogen
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Heterocyclic Compound
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cyclic compound in which one or more of the atoms in the ring are elements other than carbon. Heterocyclic compounds may or may not be aromatic
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Heterolytic Cleavage
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Dissociation of a z-e- covalent bond in such a way that both e- are retained by one of the initially bonded atoms
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Homologous Series
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group of structurally related substances in which successive members differ by CH2 group
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Homolytic Cleavage
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dissociation of a z-e- covalent bond in such a way that one e- is retained by each of the initially bonded atoms
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Hund's Rule
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when two orbitals are of equal energy, they are populated by electrons so that each is half-filled by either one is doubly occupied
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Hydrocarbons
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a compound that contains only carbons and hydrogens
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Hydronium Ions
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the species of H3O+
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Hydrophobic Effect
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the excluding of non-polar molecules from water
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Hyper Conjugation
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delocalization of an e-
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Induced-Dipole/Induced-Dipole attractive force
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force of attraction resulting from a mutual and complementing polarization of one molecule by another. also referred to as London forces or dispersion forces
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Induced-Dipole/Induced-Dipole
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(only forces possible in non-polar alkane molecules) non-polar molecule has its e- density shifted by a charged molecule
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Inductive Effects
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an electronic effect transmitted by successive polarization of the a bonds within a molecule or an ion
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Initiation Step
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a process which causes a reaction, usually a free-radical reaction to begin but which by itself is not the principle source of products. In halogenation of an alkane is the dissociation of a halogen molecule to two halogen atoms.
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Intermediate
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transient species formed during a chemical reaction. typically an intermediate is not stable under the conditions of its formation and proceeds further to form the product. unlike a transition state, which corresponds to a max along a potential energy surface, an intermediate lies at a potential energy minimum
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Intermolecular Attractive Forces
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forces, either attractive or repulsive, between two atoms or groups in separate molecules
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Intramolecular Forces
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Forces, either attractive or repulsive between two atoms or groups within the same molecule
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Ionic Bond
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chemical bond between oppositely charged particles that results from the electrostatic attraction between them
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Ionic Compound/ Bond
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opposite charges attract
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Ionization Energy
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amount of energy required to remove an electron from some species
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Ions (anion/cation)
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a charged particle
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Isobutane
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the common name for two-methylpropane, (CH3)3CH
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Isomers
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1. organic molecules having the same structural formula that exist in different forms 2. Different compounds that have the same molecular formula. Isomers may be either constitutional isomers or stereoisomers
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IUPAC Rules
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the most widely used method of naming organic compounds. it uses a set of rules proposed and periodically revised by the international union of pure and applied chemistry
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Kinetics
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Study of reaction rates and the factors that influence them
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Lewis Structures
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a chemical formula in which electrons are represented by dots. two dots (or a line) between two atoms represents a covalent bond in a Lewis Structure. Unshared electrons are explicitly shown, and stable Lewis Structures are those in which the octet rule is satisfied
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Lewis Acid/Lewis Base Complex
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the species that results by covalent bond formation between Lewis acid and a Lewis base
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localized
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restricted to a particular place
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Main Group Elements
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elements in group 1,2, and 13-18
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Mechanism
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sequence of steps that describes how a chemical reaction occurs; a description of the intermediates and transition states that are involved during the transformation of reactants to products
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Methine Group
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the group CH
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Methylene Group
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the group (-CH2-)
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Methyl Group
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the group (-CH3)
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Molecular Dipole Moment
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the overall measured dipole moment of a molecule. It can be calculated as the resultant (or vector sum) of all the individual bond dipole moments
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Molecular Formula
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chemical formula in which subscripts are used to indicate the number of atoms of each element present in one molecule. In organic compounds carbon is cited first, hydrogen second, and the remaining elements in alphabetical order.
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Molecularity
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number of species that react together in the same elementary step of a reaction mechanism
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Molecules
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a cluster of atoms
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N-Butane
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hydrocarbon with formula C4H10 an alkane
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Neutrophils
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1. most abundant circulating Leukocyte 2. first to appear when damage or infection occurs 3. kills by phagocytosis
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Noble Gases
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the elements in group 8A of the periodic table (helium, neon, argon, krypton, xenon, radon). Also known as the rare gases, thy are with few exceptions, chemically inert
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Nodal Surfaces
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a plane drawn through an orbital where the algebraic sign of a wave functions changes. The probability of finding an electron at a node is zero
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Nucleophiles
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an atom or ion that has an unshared electron pair which can be used to form a bond to carbon. Necleophils are Lewis bases
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Octet
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a filled shell of eight electrons in an atom
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Octet Rule
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when forming compounds, atoms gain, lose, or share electrons so that the number of their valence electrons is the same as that of the nearest noble gas. For the elements carbon, nitrogen, oxygen and the halogens, this number is eight
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Orbitals
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strictly speaking, a wave function. It is convenient, however to think of an orbital in terms of the probability of finding an electron at some point relative to the nucleus, as the volume inside the boundary surface of an atom, or the region in space where the probability of finding an electron is high
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Oxidation
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the loss of an electron
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Oxidation Number
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the formal charge an atom has when the atoms in its covalent bonds are assigned to the atoms in its covalent bonds are assigned to the more electronegative partner
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Oxidation-Reduction
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a reaction in which an e- is transferred from one atom to another so that each atom undergoes a change in oxidation number.
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Oxidation State
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degree of oxidation of an atom or molecule; for simple atoms or ions the oxidation number is equal to the ionic charge
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Oxonium Ion
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the species H3O+ (also called hydronium ion)
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Paraffin Hydrocarbons
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an old name for alkanes and cycloalkanes
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Pauli Exclusion Principle
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no two electrons can have the same set of four quantum numbers. an equivalent expression is that only two electrons can occupy the same orbital, and then only when they have opposite spins.
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Pepticle Bond
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Chemical bond formed between the carboxyl groups and amino groups of neighboring amino acids, constituting the primary linkage
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Period (row)
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a horizontal row of the periodic table
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Photochemical Reactions
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chemical reaction that occurs when light is absorbed by a substance
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Pi Bond
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a bond in which the e- distribution is concentrated above and below the internuclear axis, rather than along as in a sigma bond. In O-Chem, pi bonds are most often associated with a side-by-side overlap of p orbitals on adjacent atoms that are already connected by a sigma bond
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Pi Electrons
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e- in a pi bond or a pi orbital
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pKa
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a measure of acid strength defined as -log ka. the stronger the acid, the smaller the value of pka
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Polar Covalent Bond
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a shared electron pair bond in which the electrons are drawn more closely to one of the bonded atoms than the other
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Polarizability
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measure of the ease of distortion of the electric field associated with an atom or a group. a fluorine atom in a molecule ex: holds its e-(s) tightly and is very nonpolarizable Iodine is very polarizable.
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Potential Energy
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the energy a system has exclusive of its kinetic energy
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Potential Energy Diagram
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plot potential energy vs. some arbitrary measure of the degree to which a reaction has proceeded (the reaction coordinate) point of max potential energy is their transition state.
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Primary Carbon
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A carbon that is directly attached to only one other carbon.
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Principal Quantum Number
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The quantum number (n) of an electron that describes its energy level. An electron with n=1 must be an s electron; one with n=2 has s and p states available.
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Propagation
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Elementary steps that repeat over and over again a chain reaction almost all of the products in chain reaction arise from the propagation steps.
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Proton Acceptor
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A Bronsted Base.
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Proton Donor
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A Bronsted Acid.
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Quaternary Carbon
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A carbon that is directly attached to four other carbons.
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Rare Gases
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Synonymous with noble gases (helium, neon, argon, krypton, and xenon).
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Rate-Determining Step
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Slowest step of a multistep reaction mechanism. The overall rate of reaction can be no faster then its slowest step.
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Reduction
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1. To understand a complex system by reducing it to its working parts. 2. Gain of an electron.
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Refining
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Conversion of crude oil to useful materials, especially gasoline.
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Reforming
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Step in oil refining in which the proportion of aromatic and branched - chain hydrocarbons in petroleum is increased so as to improve the octane rating of gasoline.
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Resonance
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Method by which electron delocalization may be shown using lewis structures. The true electron delocalization in a molecule regarded as a hybrid of the various lewis structures that can be written for it.
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Resonance Hybrid
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The collection of lewis structures that, taken together, represent the electron distribution in a molecule.
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Ring Inversion
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Process by which a chair conformation of cyclohexane is converted to a mirror-image chair. All of the equatorial substituents become axial, and vice versa. Also called ring flipping, or chair-chair interconversion.
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Secondary Carbon
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A carbon that is directly attached to two other carbons.
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Second Law of Thermodynamics
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Disorder is more likely than order. States entropy is always increasing.
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Shared Electron Pair
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Two electrons shared between two atoms.
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Shell
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The group of orbitals that have the same principal quantum number (n).
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Sigma Bond
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In valence-bond theory, a bond characterized by overlap of a half-filled orbital of one atom with a half-filled orbital of a second atom along a line connecting the two nuclei.
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Skew Boat
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A conformation of cyclohexane that is less stable than the chair, but slightly more stable than the boat.
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Sp Hybridization
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Hybridization state adopted by carbon when it bonds to two other atoms as, for example, in alkynes. The s orbital and one of the 2p orbitals mix to form two equivalent sp-hybridization orbitals. A linear geometry is characteristic to the sp hybridization.
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Sp2 Hybrid Orbitals
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A modle to describe the bonding of a carbon attached to three other atoms or groups. The carbon 2s orbital and the two 2p orbitals are combined to give a set of three equivalent spy orbitals having 33.3% s character and 66.7% p character. One p orbital remains un-hybridized. A trigonal planar geometry is characteristic of sp2 hybridization.
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Sp3 Hybrid Orbitals
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A modle to describe the bonding of a carbon attached to four other atoms or groups. The carbon 2s orbital and the 3 2p orbitals are combined to give rise to a set of four equivalent orbitals having 25% s character and 75% p character. These orbitals are directed toward the corners of a tetrahedron.
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Spin
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Synonymous with spin quantum number.
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Spin Density
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Measure of the unpaired electron distribution at the various atoms in a molecule.
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Spin Quantum Number
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One of four quantum numbers that describe an electron. The electron may have either of two different spin quantum numbers, + or - 1/2.
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Spiro Compound
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A compound in which a single carbon is common to two rings.
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Staggered Conformation
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Conformation of the type shown, in which the bonds of adjacent carbons are as far away from one another as possible.
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Standard Free Energy Change (Delta G)
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The free energy change of delta G for a reaction occuring under standard condition. The standard state is the state (solid, liquid, or gas) of a substance at a pressure of 1 atm. The standard state for a solution is 1M. pH=7
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Stereoisomers
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Isomers with the same constitution but that different in respect to the arrangement of their atoms in space. (either enantiomers or diastereomers)
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Stereoisomers
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Isomers with the same constitution but that differ in respect to the arrangement of their atoms in space. Stereoisomers may be either enantiomers or diastereomers.
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Steric Hindrance
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An effect on structure or reactivity that depends on van der waals repulsive forces.
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Steric Strain
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Destabilization of a molecule as a result of van der waals repulsion, distorted bond distances, bond angles, or torsion angles.
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Strain Energy
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Excess energy possessed by a species because of van der waals repulsion, distorted bond lengths, bond angles, or torsion angles.
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Structural Isomers
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Synonymous with constitutional isomer.
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Substitution
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The replacement of an atom or group in a molecule by a different atom or group.
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Substrate
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Molecule that will undergo a reaction.
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Substitutive Nomenclature
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Type of IUPAC nomenclature in which a substance is identified by a naming ending in a suffix characteristic of the type of compound.
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Tetrahedral Angle
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The angle between one line directed from the center of a tetrahedron to a vertex and a second line from the center to a different vertex the angle is 109.28.
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Tertiary Carbon
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A carbon that is directly attached to three other carbons.
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Torsional Strain
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Decreased with stability of a molecule associated with eclipsed bonds.
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Trans
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Stereochemical prefix indication that two substituents are on opposite sides of a ring or a double bond.
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Transition State
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Point of max energy in an elementary step of a reaction mechanism.
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Triple Bond
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Bond formed by the sharing of six electrons between two atoms.
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Twist Boat
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Synonymous with skew boat.
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Unimolecular
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Describing a step in a reaction mechanism in which only one particle undergoing a chemical change at the transition state.
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Unshared Pairs
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In a lewis structure, two valence electrons of an atom that are in the same orbital and not shared with any other atom.
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Valence Bond Theory
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Theory of chemical bonding based on overlap of half-filled atomic orbitals between two atoms. Orbital hybridization is an important element of valence bond theory.
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Valence Electrons
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The outermost electrons of an atom. For second row elements these are the 2s and 2p electrons.
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Valence Shell
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The group of orbitals, filled and unfilled, responsible for the characteristic chemical properties of an atom.
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Valence Shell Electron - Pair Repulsion Model (VSEPR)
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Method for predicting the shape of a molecule based on the notion that electron pairs surrounding a central atom repel one another. Four electron pairs will arrange themselves in a tetrahedral geometry, three will assume a trigonal planar geometry, and two electron pairs will adopt a linear arrangement.
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Van der Waals Forces
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Intermolecular forces that do not involve ions (dipole-dipole, dipole/induced-dipole, and induced/induced dipole forces).
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Van der Waals Radius
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A measure of the effective size of an atom or a group. The repulsive force between two atoms increases rapidly when they approach each other at distances less than the sum of their van der waals radii.
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Van der Waals Strain
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Destabilization that results when two atoms or groups approach each other too closely also known as van der waals repulsion.
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Wave Function
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The solution to arith-expressions that express the engery of an electron in an atom.