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HIV-Protease
HIV-protease is a protein synthesized by the
human immunodeficiency virus (HIV). This particular protein is crucial to the viruss ability to multiply and cause AIDS Pharmaceutical companies designed molecules that would disable HIV-protease by sticking to the molecules active site protease inhibitors To design such a molecule, researchers used bonding theories to simulate the shape of potential drug molecules and how they would interact with the protease molecule
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Bonding Theories
Types of Bonds
We can classify bonds based on the kinds of
atoms that are bonded together
Types of Atoms metals to nonmetals nonmetals to nonmetals metals to metals
Tro: Chemistry: A Molecular Approach, 2/e
Type of Bond
Ionic Covalent Metallic
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Bond Characteristic
Types of Bonding
Ionic Bonds
When a metal atom loses electrons it becomes
a cation
metals have low ionization energy, making it relatively easy to remove electrons from them
Covalent Bonds
Metallic Bonds
The relatively low ionization energy of metals
allows them to lose electrons easily The simplest theory of metallic bonding involves the metal atoms releasing their valence electrons to be shared as a pool by all the atoms/ions in the metal
an organization of metal cation islands in a sea of electrons electrons delocalized throughout the metal structure
Metallic Bonding
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Valence Electrons & Bonding Because valence electrons are held most
loosely, and Because chemical bonding involves the transfer or sharing of electrons between two or more atoms, Valence electrons are most important in bonding Lewis theory focuses on the behavior of the valence electrons
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Practice Write the Lewis structure for arsenic As is in column 5A, therefore it has five valence
electrons.
As
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sharing electrons Usually this results in all atoms obtaining an outer shell with eight electrons
octet rule there are some exceptions to this rulethe key to remember is to try to get an electron configuration like a noble gas
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Octet Rule
When atoms bond, they tend to gain, lose, or share
electrons to result in eight valence electrons ns2np6
noble gas configuration
Many exceptions
Lewis Theory and Ionic Bonding Lewis symbols can be used to represent the
transfer of electrons from metal atom to nonmetal atom, resulting in ions that are attracted to each other and therefore bond
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compounds that result It also allows us to predict the relative strengths of the resulting ionic bonds from Coulombs Law
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its valence electrons and the nonmetal has an octet Numbers of atoms are adjusted so the electron transfer comes out even
Li2O
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Example 9.1: Using Lewis theory to predict chemical formulas of ionic compounds
Predict the formula of the compound that forms between calcium and chlorine.
Draw the Lewis dot symbols of the elements. Transfer all the valence electrons from the metal to the nonmetal, adding more of each atom as you go, until all electrons are lost from the metal atoms and all nonmetal atoms have eight electrons.
Tro: Chemistry: A Molecular Approach, 2/e 24
Ca
Ca
Cl
Cl
Ca2+ CaCl2
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Cl
PracticeUse Lewis symbols to predict the formula of an ionic compound made from reacting a metal, M, that has two valence electrons with a nonmetal, X, that has five valence electrons
M3X2
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Crystal Lattice
Electrostatic attraction is nondirectional!!
no direct anioncation pair
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Lattice Energy
The extra stability that accompanies the
formation of the crystal lattice is measured as the lattice energy The lattice energy is the energy released when the solid crystal forms from separate ions in the gas state
always exothermic hard to measure directly, but can be calculated from knowledge of other processes
Determining Lattice Energy The BornHaber Cycle The BornHaber Cycle is a hypothetical
series of reactions that represents the formation of an ionic compound from its constituent elements The reactions are chosen so that the change in enthalpy of each reaction is known except for the last one, which is the lattice energy
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DHf(NaCl, s) = DHf(Na atoms,g) + DHf(Cl atoms, Cl bond g) energy) + DHf(Na + +,g) ,g) + DH + DH Na 1st f(Cl Ionization Energy (NaCl+lattice) Cl Electron Affinity + NaCl Lattice Energy
NaCl Lattice Energy = ( D H 411 f(NaCl, kJ) s) [(+108 [DHf(Na kJ) atoms, + (+122 g) + kJ) + DHf(Cl (+496 kJ) Cl +bond (349 energy) kJ) ] + Na = 788 1st Ionization kJ Energy + Cl Electron Affinity ]
Tro: Chemistry: A Molecular Approach, 2/e 32 Copyright 2011 Pearson Education, Inc.
Practice Given the information below, determine the lattice energy of MgCl2
Mg(s) Mg(g) Cl2(g) Cl(g) Mg(g) Mg+(g) Mg+(g) Mg2+(g) Cl(g) Cl(g) Mg(s) + Cl2(g) MgCl2(s) DH1f = +147.1 kJ/mol DH2f = +122 kJ/mol DH3f = +738 kJ/mol DH4f = +1450 kJ/mol DH5f = 349 kJ/mol DH6f = 641 kJ/mol
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Practice Given the information below, determine the lattice energy of MgCl2
Mg(s) Mg(g) 2{ Cl2(g) Cl(g)} Mg(g) Mg+(g) Mg+(g) Mg2+(g) 2{Cl(g) Cl(g)} Mg2+(g) + 2 Cl(g) MgCl2(s) Mg(s) + Cl2(g) MgCl2(s) DH1f = +147.1 kJ/mol 2DH2f = 2(+122 kJ/mol) DH3f = +738 kJ/mol DH4f = +1450 kJ/mol 2DH5f = 2(349 kJ/mol) DH lattice energy = ? kJ/mol DH6f = 641 kJ/mol
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Trends in Lattice Energy Ion Size The force of attraction between charged
particles is inversely proportional to the distance between them Larger ions mean the center of positive charge (nucleus of the cation) is farther away from the negative charge (electrons of the anion)
larger ion = weaker attraction weaker attraction = smaller lattice energy
Tro: Chemistry: A Molecular Approach, 2/e 35 Copyright 2011 Pearson Education, Inc.
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Example 9.2: Order the following ionic compounds in order of increasing magnitude of lattice energy: CaO, KBr, KCl, SrO
First examine the ion charges Ca2+& O2-, K+ & Br, and order by sum of the charges K+ & Cl, Sr2+ & O2 (KBr, KCl) < (CaO, SrO) Then examine the ion sizes of each group and order by radius; larger < smaller (KBr, KCl) same cation, Br > Cl (same Group)
Practice Order the following ionic compounds in order of increasing magnitude of lattice energy: MgS, NaBr, LiBr, SrS
First examine the ion charges Mg2+& S2-, Na+ & Br, and order by sum of the charges Li+ & Br, Sr2+ & S2 (NaBr, LiBr) < (MgS, SrS) Then examine the ion sizes of each group and order by radius; larger < smaller (NaBr, LiBr) same anion, Na+ > Li+ (same Group)
between ions are strong Lewis theory predicts ionic compounds should have high melting points and boiling points because breaking down the crystal should require a lot of energy
the stronger the attraction (larger the lattice energy), the higher the melting point
Melting points generally > 300 C The liquid state conducts electricity
the solid state does not conduct electricity
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Practice Which ionic compound below has the highest melting point? KBr (734 C)
CaCl2 (772 C) MgF2 (1261 C)
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Conductivity of NaCl
in NaCl(s), the ions are stuck in position and not allowed to move to the charged rods
in NaCl(aq), the ions are separated and allowed to move to the charged rods
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Lewis Theory of Covalent Bonding Lewis theory implies that another way atoms
can achieve an octet of valence electrons is to share their valence electrons with other atoms The shared electrons would then count toward each atoms octet The sharing of valence electrons is called covalent bonding
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Bonding pairs
. . . . . . . . . . . . O .. S . . O. .
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Lone pairs
F
F
F
F
F
H O H H O H
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O O
N N
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H2
HCl
Tro: Chemistry: A Molecular Approach, 2/e 54 Copyright 2011 Pearson Education, Inc.
H2 O O2
+
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HF
EN 2.1 H
EN 4.0
d+ H F d-
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some degree of ion formation to them Bonds are classified as covalent if the amount of electron transfer is insufficient for the material to display the classic properties of ionic compounds If the sharing is unequal enough to produce a dipole in the bond, the bond is classified as polar covalent
65 Copyright 2011 Pearson Education, Inc.
Electronegativity
The ability of an atom to attract bonding
electrons to itself is called electronegativity Increases across period (left to right) and Decreases down group (top to bottom)
fluorine is the most electronegative element francium is the least electronegative element noble gas atoms are not assigned values opposite of atomic size trend
Electronegativity Scale
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100%
4.0
Bond Polarity
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Dipole Moments
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Beware!!
Lewis Theory predicts that atoms will be most stable
when they have their octet of valence electrons It does not require that atoms have the same number of lone pair electrons they had before bonding
first use the octet rule
Lewis Structures
Generally try to follow the common bonding
patterns
C = 4 bonds & 0 lone pairs, N = 3 bonds & 1 lone pair, O= 2 bonds & 2 lone pairs, H and halogen = 1 bond, Be = 2 bonds & 0 lone pairs, B = 3 bonds & 0 lone pairs often Lewis structures with line bonds have the lone pairs left off
their presence is assumed from common bonding patterns
N
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O H O N O
O H O N O
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. .
. .
. .
6. If central atom does not have octet, bring in electrons from outside atoms to share
follow common bonding patterns if possible
Tro: Chemistry: A Molecular Approach, 2/e 82
. .
H O
O |
. . .. . O . O
SeOF2
SO32
NO2
Tro: Chemistry: A Molecular Approach, 2/e 83
P2H4
Copyright 2011 Pearson Education, Inc.
H3PO4
32 e
SeOF2
26 e
SO32
26 e
NO2
18 e
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P2H4
14 e
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Formal Charge
During bonding, atoms may end with more or
fewer electrons than the valence electrons they brought in order to fulfill octets This results in atoms having a formal charge FC = valence e nonbonding e bonding e left OFC = 6 4 (4) = 0 S FC = 6 2 (6) = +1 right O FC = 6 6 (2) = 1 Sum of all the formal charges in a molecule = 0
in an ion, total equals the charge
Tro: Chemistry: A Molecular Approach, 2/e 85 Copyright 2011 Pearson Education, Inc.
C
+ C
N
+ N N
O
+ O
F F F +
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Incomplete octets
B, Al
Tro: Chemistry: A Molecular Approach, 2/e 88 Copyright 2011 Pearson Education, Inc.
SeOF2
SO32
NO2
Tro: Chemistry: A Molecular Approach, 2/e 89
P2H4
Copyright 2011 Pearson Education, Inc.
H3PO4
P = +1 rest 0
SeOF2
Se = +1
SO32
S = +1
NO2
Tro: Chemistry: A Molecular Approach, 2/e 90
P2H4
all 0
Copyright 2011 Pearson Education, Inc.
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Resonance Structures When there is more than one Lewis structure for
a molecule that differ only in the position of the electrons, they are called resonance structures The actual molecule is a combination of the resonance forms a resonance hybrid
the molecule does not resonate between the two forms, though we often draw it that way
. . . . . . . . . . . . O .. S . . O. .
Tro: Chemistry: A Molecular Approach, 2/e 92
. . . . . . . . . . . ..O . S .. O . .
Ozone Layer
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Resonance
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1 1 +1 1
1
+1
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1 +2
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Practice Identify Structures with Better or Equal Resonance Forms and Draw Them CO2
all 0
H3PO4
P = +1 rest 0
SeOF2
Se = +1
SO32
S = +1
NO2
Tro: Chemistry: A Molecular Approach, 2/e 99
P2H4
all 0
Copyright 2011 Pearson Education, Inc.
Practice Identify Structures with Better or Equal Resonance Forms and Draw Them CO2
none
H3PO4
SeOF2
1 +1
SO32
NO2
Tro: Chemistry: A Molecular Approach, 2/e 100
P2H4
none
Copyright 2011 Pearson Education, Inc.
Bond Energies
Chemical reactions involve breaking bonds in
reactant molecules and making new bonds to create the products The DHreaction can be estimated by comparing the cost of breaking old bonds to the income from making new bonds The amount of energy it takes to break one mole of a bond in a compound is called the bond energy
in the gas state homolytically each atom gets bonding electrons
Tro: Chemistry: A Molecular Approach, 2/e 101 Copyright 2011 Pearson Education, Inc.
surrounding atoms and other factors We often use average bond energies to estimate the DHrxn
works best when all reactants and products in gas state
Cl
Cl
H C Cl H
H Cl
DHrxn = (DH(bonds broken)) + (DH(bonds made)) Bond breaking 1 mole CH +414 kJ 1 mole ClCl +243 kJ total +657 kJ Bond making 1 mole CCl 1 mole ClH total DHrxn = (+657 kJ) + (770 kJ) DHrxn = 113 kJ
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bonds broken (energy cost) (+436 kJ) + (+498 kJ) = +934 kJ bonds made (energy release) 2(464 kJ) + (142 kJ) = 1070. kJ DHrxn = (+934 kJ) + (1070. kJ) = 136 kJ (Appendix DHf = 136.3 kJ/mol)
Tro: Chemistry: A Molecular Approach, 2/e 107 Copyright 2011 Pearson Education, Inc.
Bond Lengths
The distance between the nuclei
of bonded atoms is called the bond length Because the actual bond length depends on the other atoms around the bond we often use the average bond length
averaged for similar bonds from many compounds
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Bond Lengths
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Metallic Bonds
The low ionization energy of metals allows
them to lose electrons easily The simplest theory of metallic bonding involves the metal atoms releasing their valence electrons to be shared by all to atoms/ions in the metal
an organization of metal cation islands in a sea of electrons electrons delocalized throughout the metal structure
Metallic Bonding
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Metallic Bonding Model vs. Reality This theory implies that because the
electrons are delocalized, they are able to move through the metallic crystal Because electrical conductivity takes place when charged particles (such as electrons) are able to move through the structure, this model predicts metallic solids should conduct electricity well Metallic solids do conduct electricity well
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Metallic Bonding Model vs. Reality This theory implies heating will cause the metal
ions to vibrate faster Heating will therefore make it more difficult for the electrons to travel through the crystal This theory predicts the conductivity of a metal should decrease as its temperature increases As temperature increases, the electrical conductivity of metals decreases
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cores for the delocalized electrons will be stronger when there are more delocalized electrons This model implies the attractions of the atom cores for the delocalized electrons will be stronger when the charge on the atom core is larger This model predicts that the melting point of metals should increase as the charge on the cation increases
left-to-right across the period