Chemical Bonding & Chemical Structure
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Atomic Orbitals
Visualization of Atomic Orbitals Source: Robert R. Gotwals, Jr., Department of Chemistry, North Carolina School of Science and Mathematics, Durham, NC, 27705. Email: [email protected]. Copyright ©2007, all rights reserved, permission to use for non-commercial educational purposes is granted. Introductory Readings Where are the electrons in an atom? There are a number of Models - a description of models that look to describe the location and behavior of some physical object or electrons in atoms. It is important to know this information, as behavior in nature. Models it helps chemists to make statements and predictions about are often mathematical, describing the behavior of how atoms will react with other atoms to form molecules. The some event. model one chooses will oftentimes influence the types of statements one can make about the behavior – that is, the reactivity – of an atom or group of atoms. Bohr model - states that no One model, the Bohr model, describes electrons as small two electrons in an atom can billiard balls, rotating around the positively charged nucleus, have the same set of four much in the way that planets quantum numbers. orbit around the Sun. The placement and motion of electrons are found in fixed and quantifiable levels called orbits, Orbits- where electrons are or, in older terminology, shells. believed to be located in the There are specific numbers of Bohr model. Orbits have a electrons that can be found in fixed amount of energy, and are identified with the each orbit – 2 for the first orbit, principle quantum number 8 for the second, and so forth. -
Structure and Bonding Electron Configurations in the Periodic Table
Structure and Bonding The study of organic chemistry must at some point extend to the molecular level, for the physical and chemical properties of a substance are ultimately explained in terms of the structure and bonding of molecules. This module introduces some basic facts and principles that are needed for a discussion of organic molecules. Electronic Configurations Electron Configurations in the Periodic Table 1A 2A 3A 4A 5A 6A 7A 8A 1 2 H He 1 2 1s 1s 3 4 5 6 7 8 9 10 Li Be B C N O F Ne 2 2 2 2 2 2 2 2 1s 1s 1s 1s 1s 1s 1s 1s 2s1 2s2 2s22p1 2s22p2 2s22p3 2s22p4 2s22p5 2s22p6 11 12 13 14 15 16 17 18 Na Mg Al Si P S Cl Ar [Ne] [Ne] [Ne] [Ne] [Ne] [Ne] [Ne] [Ne] 3s1 3s2 3s23p1 3s23p2 3s23p3 3s23p4 3s23p5 3s23p6 Four elements, hydrogen, carbon, oxygen and nitrogen, are the major components of most organic compounds. Consequently, our understanding of organic chemistry must have, as a foundation, an appreciation of the electronic structure and properties of these elements. The truncated periodic table shown above provides the orbital electronic structure for the first eighteen elements (hydrogen through argon). According to the Aufbau principle, the electrons of an atom occupy quantum levels or orbitals starting from the lowest energy level, and proceeding to the highest, with each orbital holding a maximum of two paired electrons (opposite spins). Electron shell #1 has the lowest energy and its s-orbital is the first to be filled. -
VSEPR Theory
VSEPR Theory The valence-shell electron-pair repulsion (VSEPR) model is often used in chemistry to predict the three dimensional arrangement, or the geometry, of molecules. This model predicts the shape of a molecule by taking into account the repulsion between electron pairs. This handout will discuss how to use the VSEPR model to predict electron and molecular geometry. Here are some definitions for terms that will be used throughout this handout: Electron Domain – The region in which electrons are most likely to be found (bonding and nonbonding). A lone pair, single, double, or triple bond represents one region of an electron domain. H2O has four domains: 2 single bonds and 2 nonbonding lone pairs. Electron Domain may also be referred to as the steric number. Nonbonding Pairs Bonding Pairs Electron domain geometry - The arrangement of electron domains surrounding the central atom of a molecule or ion. Molecular geometry - The arrangement of the atoms in a molecule (The nonbonding domains are not included in the description). Bond angles (BA) - The angle between two adjacent bonds in the same atom. The bond angles are affected by all electron domains, but they only describe the angle between bonding electrons. Lewis structure - A 2-dimensional drawing that shows the bonding of a molecule’s atoms as well as lone pairs of electrons that may exist in the molecule. Provided by VSEPR Theory The Academic Center for Excellence 1 April 2019 Octet Rule – Atoms will gain, lose, or share electrons to have a full outer shell consisting of 8 electrons. When drawing Lewis structures or molecules, each atom should have an octet. -
8.3 Bonding Theories >
8.3 Bonding Theories > Chapter 8 Covalent Bonding 8.1 Molecular Compounds 8.2 The Nature of Covalent Bonding 8.3 Bonding Theories 8.4 Polar Bonds and Molecules 1 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 8.3 Bonding Theories > Molecular Orbitals Molecular Orbitals How are atomic and molecular orbitals related? 2 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 8.3 Bonding Theories > Molecular Orbitals • The model you have been using for covalent bonding assumes the orbitals are those of the individual atoms. • There is a quantum mechanical model of bonding, however, that describes the electrons in molecules using orbitals that exist only for groupings of atoms. 3 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 8.3 Bonding Theories > Molecular Orbitals • When two atoms combine, this model assumes that their atomic orbitals overlap to produce molecular orbitals, or orbitals that apply to the entire molecule. 4 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 8.3 Bonding Theories > Molecular Orbitals Just as an atomic orbital belongs to a particular atom, a molecular orbital belongs to a molecule as a whole. • A molecular orbital that can be occupied by two electrons of a covalent bond is called a bonding orbital. 5 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 8.3 Bonding Theories > Molecular Orbitals Sigma Bonds When two atomic orbitals combine to form a molecular orbital that is symmetrical around the axis connecting two atomic nuclei, a sigma bond is formed. • Its symbol is the Greek letter sigma (σ). -
Electron Configurations, Orbital Notation and Quantum Numbers
5 Electron Configurations, Orbital Notation and Quantum Numbers Electron Configurations, Orbital Notation and Quantum Numbers Understanding Electron Arrangement and Oxidation States Chemical properties depend on the number and arrangement of electrons in an atom. Usually, only the valence or outermost electrons are involved in chemical reactions. The electron cloud is compartmentalized. We model this compartmentalization through the use of electron configurations and orbital notations. The compartmentalization is as follows, energy levels have sublevels which have orbitals within them. We can use an apartment building as an analogy. The atom is the building, the floors of the apartment building are the energy levels, the apartments on a given floor are the orbitals and electrons reside inside the orbitals. There are two governing rules to consider when assigning electron configurations and orbital notations. Along with these rules, you must remember electrons are lazy and they hate each other, they will fill the lowest energy states first AND electrons repel each other since like charges repel. Rule 1: The Pauli Exclusion Principle In 1925, Wolfgang Pauli stated: No two electrons in an atom can have the same set of four quantum numbers. This means no atomic orbital can contain more than TWO electrons and the electrons must be of opposite spin if they are to form a pair within an orbital. Rule 2: Hunds Rule The most stable arrangement of electrons is one with the maximum number of unpaired electrons. It minimizes electron-electron repulsions and stabilizes the atom. Here is an analogy. In large families with several children, it is a luxury for each child to have their own room. -
Atomic Structure and Bonding
IM2665 Chemistry of Nanomaterials Atomic Structure and Bonding Assoc. Prof. Muhammet Toprak Division of Functional Materials KTH Royal Institute of Technology Background • Electromagnetic waves • Materials wave motion, • Quantified energy and – Louis de Broglie (1892-1987) photons • Uncertainity principle – Max Planck (1858-1947) – Werner Heisenberg (1901-1976) – Albert Einstein (1879-1955) • Schrödinger equation • Bohr’s atom model – Erwin Schrödinger (1887-1961) – Niels Bohr (1885-1962) IM2657 Nanostr. Mater. & Self Assembly 2 Electromagnetic Spectrum Visible light is only a small part of the Electromagnetic Spectrum IM2657 Nanostr. Mater. & Self Assembly 3 Electromagnetic Waves • Wavemotion is defined by • Calculations – ν = Frequency ( Hz) – c = ν × λ – λ = wavelength (m) – c = 3,00 × 108 m/s (speed of light) IM2657 Nanostr. Mater. & Self Assembly 4 Quantified Energy and Photons • E = h × ν; where h = 6,63 × 10-34 J s (Planck’s constant) • Photoelectric Effect (1905) IM2657 Nanostr. Mater. & Self Assembly 5 Thomson´s Pudding Model For a helium atom, the model proposes a large spherical cloud with two units of positive charge. Th e two electrons lie on a line through the center of the cloud. The loss of one electron produces the He+1 ion, with the remaining electron at the center of the cloud. The loss of a second electron prod uces He+2 , in which there is just a cloud of positive charge. IM2657 Nanostr. Mater. & Self Assembly 6 Rutherford’s Experiment The notion that atoms consist of very small nuclei containing protons and neutrons surrounded by a much larger cloud of electrons was IM2657 Nanostr. Mater. & Self Assembly 7 developed from an α particle scattering experiment. -
Lecture 3. the Origin of the Atomic Orbital: Where the Electrons Are
LECTURE 3. THE ORIGIN OF THE ATOMIC ORBITAL: WHERE THE ELECTRONS ARE In one sentence I will tell you the most important idea in this lecture: Wave equation solutions generate atomic orbitals that define the electron distribution around an atom. To start we need to simplify the math by switching to spherical polar coordinates (everything = spherical) rather than Cartesian coordinates (everything = at right angles). So the wave equations generated will now be of the form ψ(r, θ, Φ) = R(r)Y(θ, Φ) where R(r) describes how far out on a radial trajectory from the nucleus you are. r is a little way out and is small Now that we are extended radially on ψ, we need to ask where we are on the sphere carved out by R(r). Think of blowing up a balloon and asking what is going on at the surface of each new R(r). To cover the entire surface at projection R(r), we need two angles θ, Φ that get us around the sphere in a manner similar to knowing the latitude & longitude on the earth. These two angles yield Y(θ, Φ) which is the angular wave function A first solution: generating the 1s orbit So what answers did Schrodinger get for ψ(r, θ, Φ)? It depended on the four quantum numbers that bounded the system n, l, ml and ms. So when n = 1 and = the solution he calculated was: 1/2 -Zr/a0 1/2 R(r) = 2(Z/a0) *e and Y(θ, Φ) = (1/4π) . -
VSEPR Molecular Geometry Tutorial
Constructing Molecular Shapes A Tutorial on Writing the Shape of Molecules Dr. Fred Omega Garces Chemistry 100 Miramar College 1 Determining Molecular Shape 10.7.00 10:09 PM VSEPR- Valence Shell Electron-Pair Repulsion Theory Main premise of model- Valence electron pair repel each other in molecule with shapes the molecule Molecule assumes Geometry that minimizes electrostatic repulsion: Occurs when electron pair are far apart as possible. Driving force is the Pauli exclusion principle : 2 electrons with same spin can't occupy the same space. Electronic Geometry is the geometry around the central atom in which electron-electron repulsion is minimize. AEn (system) Molecular Geometry is geometry around central atom when electron pairs are replace by bonding atoms and the nonbonding electrons are ignored. ABmEn (system) 2 Determining Molecular Shape 10.7.00 10:09 PM VSEPR- Procedural Steps 1) Determine the Lewis Structure. a) Valence electrons for each atom in the structure. b) Determine the atomic sequence, the number of bonds, remaining electrons c) Write Lewis structure with each atom obeying the octet rule Example: HNO3 ( See Lewis Structure Tutorial) O N O O H 3 Determining Molecular Shape 10.7.00 10:09 PM VSEPR- Procedural Steps 2) Determine electronic geometry (AEn system) from Lewis structure. a) Count the electron domain (region) around the central atom. b) Arrange electron domain to minimize electron-electron repulsion. Occurs when electron pair are far apart as possible. c) 2-domainglinear, 3-domaingtrigonal, 4-domaingtetrahedral O N O Example: HNO3 O Central Atoms, N and O H O N O O N: Three electron domain AE3 Trigonal H O N O O: Four electron domain O AE4 Tetrahedral H 4 Determining Molecular Shape 10.7.00 10:09 PM VSEPR- Procedural Steps 3) Determine molecule geometry (ABmEn) from electronic geometry. -
Amine-Based Zinc(II), Copper(II), and Oxidovanadium(IV) Complexes: SOD Scavenging, DNA Binding, and Anticancer Activities
Int. J. Electrochem. Sci., 7 (2012) 7526 - 7546 International Journal of ELECTROCHEMICAL SCIENCE www.electrochemsci.org Synthesis, Characterization, and Electrochemical Properties of Bis(2-benzimidazolylmethyl-6-sulfonate)amine-based zinc(II), copper(II), and oxidovanadium(IV) Complexes: SOD Scavenging, DNA binding, and Anticancer Activities Mohamed M. Ibrahim1,2, Gaber A. M. Mersal1,3, Samir A. El-Shazly4,5, Abdel-Motaleb M. Ramadan2 1 Department of Chemistry, Faculty of Science, Taif University, Taif, Saudi Arabia 2 Departmentof Chemistry, Faculty of Science, Kafr El-Sheikh University, Egypt 3 Department of Chemistry, Faculty of Science, South Valley University, Qena, Egypt 4 Departmentof Biochemistry, Faculty of Veterinary Medicine, Kafr El-Sheikh University, Egypt 5 Department of Biotechnology, Faculty of Science, Taif University, Taif, Saudi Arabia *E-mail: [email protected] Received: 8 June 2012 / Accepted: 9 July 2012 / Published: 1 August 2012 The synthesis of a tridentate ligand, bis(2-benzimidazolylmethyl-6-sulfonate)amine H2SBz is described together with its zinc(II), copper(II), and oxidovanadium(IV) complexes [SBz-M(H2O)2] (M = Zn2+ 1, Cu2+ 2, and VO2+ 3). The ligand and its metal complexes 1-3 were characterized based on elemental analysis, conductivity measurements, spectral, and magnetic studies. The magnetic and spectroscopic data indicate a square pyramidal geometry is proposed for all complexes. The redox properties of the ligand and its complexes 1-3 were extensively investigated by using cyclic voltammetry. Complexes 1 and 2 exhibited quasi-reversible single electron transfer process. Whereas in complex 3, only one electron oxidation peak was observed at + 0.72 V, which is due to the oxidation of VIV to VV. -
Atomic Structure
1 Atomic Structure 1 2 Atomic structure 1-1 Source 1-1 The experimental arrangement for Ruther- ford's measurement of the scattering of α particles by very thin gold foils. The source of the α particles was radioactive radium, a rays encased in a lead block that protects the surroundings from radiation and confines the α particles to a beam. The gold foil used was about 6 × 10-5 cm thick. Most of the α particles passed through the gold leaf with little or no deflection, a. A few were deflected at wide angles, b, and occasionally a particle rebounded from the foil, c, and was Gold detected by a screen or counter placed on leaf Screen the same side of the foil as the source. The concept that molecules consist of atoms bonded together in definite patterns was well established by 1860. shortly thereafter, the recognition that the bonding properties of the elements are periodic led to widespread speculation concerning the internal structure of atoms themselves. The first real break- through in the formulation of atomic structural models followed the discovery, about 1900, that atoms contain electrically charged particles—negative electrons and positive protons. From charge-to-mass ratio measurements J. J. Thomson realized that most of the mass of the atom could be accounted for by the positive (proton) portion. He proposed a jellylike atom with the small, negative electrons imbedded in the relatively large proton mass. But in 1906-1909, a series of experiments directed by Ernest Rutherford, a New Zealand physicist working in Manchester, England, provided an entirely different picture of the atom. -
Loudon Ch. 3 Review: Acids/Bases/Curved Arrows Jacquie Richardson, CU Boulder – Last Updated 9/16/2020
Loudon Ch. 3 Review: Acids/Bases/Curved Arrows Jacquie Richardson, CU Boulder – Last updated 9/16/2020 There are two different definitions of acids and bases that show up in this chapter: 1. Lewis acids (a.k.a. electrophiles, E or E +) accept an electron pair; Lewis bases (a.ka. nucleophiles, Nu or Nu -) donate an electron pair 2. Brønsted-Lowry acids (a.k.a. acids ) donate a proton (H + ion); Brønsted-Lowry bases (a.k.a. bases ) accept a proton Brønsted-Lowry acids/bases are a subset of Lewis acids/bases. If something is a Brønsted- Lowry base it must also be a Lewis base but the reverse is not true. When an organic chemist says “acid” or “base”, what we normally mean is Brønsted-Lowry acid or base. We use the terms nucleophile for Lewis bases (things that love nuclei), and electrophile for Lewis acids (things that love electrons). Confusingly, chemists will often use “nucleophile” to mean “only- nucleophile-but-not-a-base”. Officially, though, bases are a subset of nucleophiles, and acids are a subset of electrophiles. We’re going to look some more at the differences between them, but first, here are some tools to help explain what’s going on during a reaction: curved arrows, and frontier molecular orbitals. Curved Arrows Show Electron Movement We can show the flow of electrons to a Lewis acid by using curved arrows. These are used to show the movement of electrons only , not anything else! Two electrons moving as a pair (like in a reaction between a Lewis acid and base) are shown as a full-headed arrow. -
Chapter 5.1 Slides
5.1 Revising the Atomic Model > Chapter 5 Electrons In Atoms 5.1 Revising the Atomic Model 5.2 Electron Arrangement in Atoms 5.3 Atomic Emission Spectra and the Quantum Mechanical Model 1 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 5.1 Revising the Atomic Model > Energy Levels in Atoms The Bohr Model In 1913, Niels Bohr (1885–1962), a young Danish physicist and a student of Rutherford, developed a new atomic model. • He changed Rutherford’s model to incorporate newer discoveries about how the energy of an atom changes when the atom absorbs or emits light. 2 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 5.1 Revising the Atomic Model > Energy Levels in Atoms The Bohr Model Bohr proposed that an electron is found only in specific circular paths, or orbits, around the nucleus. 3 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 5.1 Revising the Atomic Model > Energy Levels in Atoms The Bohr Model Each possible electron orbit in Bohr’s model has a fixed energy. • The fixed energies an electron can have are called energy levels. • A quantum of energy is the amount of energy required to move an electron from one energy level to another energy level. 4 Copyright © Pearson Education, Inc., or its affiliates. All Rights Reserved. 5.1 Revising the Atomic Model > Energy Levels in Atoms The Bohr Model The rungs on this ladder are somewhat like the energy levels in Bohr’s model of the atom. • A person on a ladder cannot stand between the rungs.