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Kim Shih
Morphine: A Molecular Imposter
Morphine works in a body similar to endorphins
binding to the opioid receptor’s active site.
Kim Shih
Types of Bonding
Ionic Bond:
Covalent Bond: Electrons transfer from
Atoms share electrons one atom to another.
Product: Molecule Ionic compound
Bond
Types of Atoms Type of Bond
Characteristic
metals to electrons
Ionic
nonmetals transferred
nonmetals to electrons
Covalent
nonmetals shared
metals to electrons
Metallic
metals pooled
Kim Shih
Polar Covalent Bonding
• Covalent bonding between unlike atoms results
in unequal sharing of the electrons
– one atom pulls the electrons in the bond closer to its side
– one end of the bond has larger electron density than the
other
• The result is a polar covalent bond
– bond polarity
– the end with the larger electron density gets a partial
negative charge
– the end that is electron deficient gets a partial positive
charge
Kim Shih
Electronegativity
• Most bonds have some degree of sharing and 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
Kim Shih
is classified as polar covalent
Bond Polarity
Kim Shih
Water – A Polar Molecule
stream of stream of
water hexane not
attracted attracted to
to a a charged
charged glass rod
glass rod
Kim Shih
Polar Molecule Interactions
Polar-ion
(salt dissolved in water)
Polar-polar
(wine)
Like Dissolves Like
Kim Shih
Bond Dipole Moments
• Dipole moment, m, is a measure of bond polarity
– a dipole is a material with a + and − end
– it is directly proportional to the size of the partial
charges and directly proportional to the distance
between them
• m = (q)(r)
• measured in Debyes, 1 D = 3.34 x 10-30 C.m
• Generally, the more electrons two atoms share
and the larger the atoms are, the larger the dipole
moment.
Kim Shih
Dipole Moments
Kim Shih
Identify the bond between each pair of
atoms is covalent, polar covalent or ionic.
the F atoms.
0%
D. ionic bonds.
polar
nonpolar
covalent
polar
covalent
bonds
covalent
with
bonds
bonds
partial
with
negative
partial
ioniccharges
negative
bonds.
on the I atoms.
on the F atoms.
Kim Shih
Question: What is the dipole moment that result from
separating a proton and an electron by distance of
130pm?
Hint: m = (q)(r) Q= 1.6x 10-19 C R=130pm = 130 x 10-12 m
m = (1.6x 10-19 C )x(130 x 10-12 m) = 2.1 x 10-29 C.m =6.2D
Kim Shih
Determine whether an N―O bond is ionic,
covalent, or polar covalent
Kim Shih
Octet Rule: A Guideline for Molecule Formation
• When atoms bond, they tend to gain, lose, or share
electrons to result in a “noble gas-like configuration.”
• ns2np6
• Nonmetals (2nd period elements) must obey the octet
rule (i.e., eight valence electrons around each atom in the
molecule, noble gas-like configuration).
• Exceptions to the octet rule: expanded octets
– Involve the nonmetal elements located in the 3rd
period and below
• Nonmetals (3rd period down in the periodic table) follow the octet rule when
they are not the “center” atom.
– The center atom is the atom in the molecule where the other elements
individually bond (attach).
– When they are the center atom, they can accommodate more than eight
electrons.
• Using empty valence d orbitals that are predicted by quantum theory
Lewis Structures of Molecules
Step 1: Valence Electrons
• Count the total number of valence electrons for all
atoms in the molecule.
• Add one additional electron for each negative charge in
an anion or subtract one for each positive charge in a
cation.
Kim Shih
Lewis Structures of Molecules
Step 2: Determine the center atom, put the others on the sides
• Usually the atom with the most available valence e-
• Hydrogen always on the side
• Halogen most of the times on the side unless involved in
higher period of atoms
Kim Shih
Lewis Structures of Molecules
Step 3: Assign Electrons to the Terminal Atoms
• Subtract the number of electrons used for bonding on the side
atoms from the total number determined in step 1.
• Complete each terminal atom’s octet (except for hydrogen).
H
Step 2: Identify the center atom H O H
Hydrogen is always on the sides
Step 3: Step 4: 1+
H
H
H O H H O H
Kim Shih
Draw an electron-dot structure for CH2O.
O O
Step 2: H C H Step 5: H C H
O O
Step 3: H C H H C H
Kim Shih
Resonance and Formal Charges
• Two additional concepts to write the best possible
Lewis structures for a large number
of compounds
• The concepts are:
– Resonance, used when two or more valid Lewis structures
can be drawn for the same compound
– Formal charge, an electron bookkeeping system that
allows us to discriminate between alternative Lewis
structures
Resonance
Kim Shih
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
• Look for multiple bonds or lone pairs
.. .. ..
.. O .... S .. O .. .. .. ..
.. O .. S .... O ..
.. Kim Shih
..
Electron-Dot Structures and Resonance
Draw an electron-dot structure for O3.
Step 1:
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Rules of Resonance Structures
• Resonance structures must have the same connectivity
– only electron positions can change
• Resonance structures must have the same number of
electrons
• Second row elements have a maximum of eight
electrons
– bonding and nonbonding
– third row can have expanded octet
• Formal charges must total same
Kim Shih
Practice: Resonance Structures
Write the Lewis structure for the NO3– ion. Include resonance
structures.
Write the Lewis structure for the NO2– ion. Include resonance
structures.
Evaluating Resonance Structures
Kim Shih
Formal Charges
# of # of # of
Formal - 1
= valence e - bonding - nonbonding
Charge in free atom 2 e- e-
O O O
1 1 1
6 - 2(4) - 4 = 0 6 - 2(6) - 2 = +1 6 - 2(2) - 6 = -1
# of nonbonding e- 6 0 2 4 0 4 2 0 6
½ bonding e- 1 4 3 2 4 2 3 4 1
Formal Charge -1 0 0 0 0 -1 1 0 -2
Kim Shih
Which is the best Lewis Structure of
HCN?
Structure A Structure B
H : C ::: N: H : N ::: C:
Practice - Assign formal charges
CO2 H3PO4
all 0 P = +1
rest 0
SeOF2 SO32−
S = +1
Se = +1
NO2− P2H4
all 0
Kim Shih
Exercise
Kim Shih
What are the formal charges for the following structure?
Which structure is the most stable structure?
a. .. .. b. .. c. ..
:N N O : :N N O :
.. : ..
N N O :
Kim Shih
Drawing Lewis Structures
1. Draw first Lewis structure that
maximizes octets −1
2. Assign formal charges
3. Move electron pairs from atoms
with (−) formal charge toward −1
atoms with (+) formal charge
4. If (+) fc atom 2nd row, only move +1
in electrons if you can move out
electron pairs from multiple
−1
bond
5. If (+) fc atom 3rd row or below,
keep bringing in electron pairs to −1
reduce the formal charge, even
if get expanded octet +1
Kim Shih
Drawing Lewis Structures
Expanded Octets
1. Draw first Lewis structure that −1
maximizes octets
2. Assign formal charges +2
3. Move electron pairs from atoms
with (−) formal charge toward
atoms with (+) formal charge
−1
4. If (+) fc atom 2nd row, only move
in electrons if you can move out
electron pairs from multiple bond
5. If (+) fc atom 3rd row or below,
keep bringing in electron pairs to
reduce the formal charge, even if
get expanded octet
Kim Shih
Exceptions to the Octet Rule
• Expanded octets
– elements with empty d orbitals can have more
than eight electrons
• Odd number electron species e.g., NO
– will have one unpaired electron
– free-radical
– very reactive
• Incomplete octets
– B, Al
Kim Shih
Exceptions to the Octet Rule:
Incomplete Octets
Exceptions to the octet rule fall into three categories:
Kim Shih
Exceptions to the Octet Rule:
Expanded Octets
3) The central atom has more than eight electrons.
Atoms in and beyond the third period can have more than eight
valence electrons.
This puts the unique atom, Cl, in the center and puts the more electronegative O
atoms in terminal positions.
There are a total of 19 valence electrons (7 from the Cl and 6 from each of the
two O atoms). We subtract 4 electrons to account for the two bonds in the
skeleton, leaving us with 15 electrons to distribute as follows: three lone pairs on
each O atom, one lone pair on the Cl atom, and the last remaining electron also on
the Cl atom.
Solution
Kim Shih
Worked Example 5.2
Draw the Lewis structure of boron triiodide (BI3).
Strategy The skeletal structure is
There are a total of 24 valence electrons (3 from the B and 7 from each of the
three I atoms). We subtract 6 electrons to account for the three bonds in the
skeleton, leaving 18 electrons to distribute in lone pairs on each I atom.
Solution
Kim Shih
Worked Example 5.2 (cont.)
Think About It Boron is one of the elements that does not always follow the octet
rule. Like BF3, however, BI3 can be drawn with a double bond in order to satisfy
the octet of boron. This gives rise to a total of four resonance structures.
Kim Shih
Worked Example 5.3 (cont.)
Draw the Lewis structure of arsenic pentafluoride (AsF5).
Strategy The skeletal structure already has more than an octet around the As
atom.
There are 40 total valence electrons [5 from As (Group 5A) and 7 from each of
the five F atoms (Group 7A)]. We subtract 10 electrons to account for the five
bonds in the skeleton, leaving 30 to be distributed. Next, we place three lone pairs
on each F atom, thereby completing all their octets and using up all the electrons.
Solution
Kim Shih
Worked Example 5.4 (cont.)
Draw the Lewis structure of xenon tetrafluoride (XeF4).
Strategy Follow the steps for drawing Lewis structures. The skeletal structure is
There are 36 total valence electrons (8 from Xe and 7 from each of the four F
Think About It Atoms beyond the second period can accommodate
atoms). We subtract 8 electrons to account for the bonds in the skeleton, leaving
more than an octet of electrons, whether those electrons are used in
28 to distribute. We first complete the octets of all four F atoms. When this is
bonds or reside on the atoms as lone pairs.
done, 4 electrons remain, so we place two lone pairs on the Xe atom.
Solution
Kim Shih
Which of the following Compound
follow octet rule?
A. NH3 83%
B. XeF4
C. BF3
D. H2
13%
5%
0%
Kim Shih
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
Kim Shih
Trends in Bond Lengths
• In general, the more electrons two atoms share, the
shorter the covalent bond
– must be comparing bonds between like atoms
– C≡C (120 pm) < C=C (134 pm) < C−C (154 pm)
– C≡N (116 pm) < C=N (128 pm) < C−N (147 pm)
• Generally bond length decreases from left to right
across period
– C−C (154 pm) > C−N (147 pm) > C−O (143 pm)
• Generally bond length increases down the column
– F−F (144 pm) > Cl−Cl (198 pm) > Br−Br (228 pm)
• In general, as bonds get longer, they also get weaker
Kim Shih
Place the following in order of
increasing bond length.
C-F, C-S, C-Cl
7% A. C-S < C-Cl < C-F
15% B. C-S < C-F < C-Cl
41% C. C-F < C-Cl < C-S
29% D. C-F < C-S < C-Cl
7% E. C-Cl < C-F < C-S
Kim Shih
Bond Energies
• Chemical reactions involve breaking bonds in reactant
molecules and making new bonds to create the products.
• In general, the shorter the covalent bond, the stronger the bond.
– Must be comparing similar types of bonds
– Br—F (237 kJ) > Br—Cl (218 kJ) > Br—Br (193 kJ)
– Bonds get weaker down the column.
– Bonds get stronger across the period.
Average Bond Energies
Covalent Bonding: Model versus Reality for Bond Strength
• Lewis theory predicts that the more electrons two atoms share,
the stronger the bond.
Kim Shih
Using Lewis Theory to Predict
Molecular Shapes
• Lewis theory says that these regions of electron
groups should repel each other
– because they are regions of negative charge
• This idea can then be extended to predict the
shapes of molecules
– the position of atoms surrounding a central atom will be
determined by where the bonding electron groups are
– the positions of the electron groups will be determined by
trying to minimize repulsions between them
Kim Shih
VSEPR Theory
• Electron groups around the central atom will be
most stable when they are as far apart as
possible – we call this valence shell electron
pair repulsion theory
– because electrons are negatively charged, they
should be most stable when they are separated as
much as possible
• The resulting geometric arrangement will allow
us to predict the shapes and bond angles in the
molecule
Kim Shih
Kim Shih
Electron Group Geometry
• There are five basic arrangements of electron groups
around a central atom
– based on a maximum of six bonding electron groups
• Each of these five basic arrangements results in five
different basic electron geometries
– in order for the molecular shape and bond angles to be a
“perfect” geometric figure, all the electron groups must be
bonds and all the bonds must be equivalent
• For molecules that exhibit resonance, it doesn’t matter
which resonance form you use – the electron
geometry will be the same
Kim Shih
Molecular Shapes: The VSEPR Model
Two Charge Clouds (CO2 and HCN)
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Two Clouds:e -
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Three Clouds: e-
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Four Clouds: e -
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Five e- Clouds:
Trigonal Bipyramidal Electron Geometry
• This results in the electron groups taking a trigonal bipyramidal
geometry
• The bond angle between equatorial positions is 120°
• The bond angle between axial and equatorial positions is 90°
Kim Shih
Six Clouds: e -
Kim Shih
What geometric arrangement of charge clouds is
expected for an atom that has four charge clouds?
9% A. Square planar
0% B. Trigonal bipyramidal
88% C. Tetrahedral
0% D. Octahedral
3% E. Linear
Kim Shih
What geometric arrangement of charge clouds is
expected for PCl3 ?
A. Square planar 56%
B. Trigonal bipyramidal
C. Tetrahedral 36%
D. Octahedral
E. Linear
8%
0% 0%
1 2 3 4 5
Kim Shih
Predict the electron geometry of PCl3
Kim Shih
Representing Three-Dimensional
Shapes on Paper
• Drawing molecules to show their dimensionality on paper (2-D)
is difficult.
• How to draw a 3-D representation of a molecule on paper:
– By convention, the central atom is put in the plane of the paper.
– Put as many other atoms as possible in the same plane and indicate
with a straight line.
– For atoms in front of the plane, use a solid wedge.
– For atoms behind the plane, use a hatched wedge.
Molecular Geometry
• The actual geometry of the molecule may be
different from the electron geometry
• When the electron groups are attached to
atoms of different size, or when the bonding to
one atom is different than the bonding to
another, this will affect the molecular geometry
around the central atom
• Lone pairs also affect the molecular geometry
– they occupy space on the central atom, but are not
“seen” as points on the molecular geometry
Kim Shih
Not Quite Perfect Geometry
Effect of Double Bonds
Kim Shih
Not Quite Perfect Geometry
The Effect of Lone Pairs
• Lone pair groups “occupy more space” on the
central atom
– because their electron density is exclusively on the
central atom rather than shared like bonding electron
groups
• Relative sizes of repulsive force interactions is
Lone Pair – Lone Pair > Lone Pair – Bonding Pair > Bonding Pair – Bonding Pair
bonding electrons
The nonbonding are shared
electrons by twoonatoms,
are localized the
so someatom,
central of thesonegative charge is charge
area of negative removed from
takes
the central
more spaceatom
Kim Shih
Bond Angle Distortion
from Lone Pairs (NH3 )
Kim Shih
Bond Angle Distortion
from Lone Pairs (H2O)
Kim Shih
Molecular Shapes: The VSEPR Model
Three Charge Clouds(CH2O, SO2)
Kim Shih
Bent Molecular Geometry:
Derivative of Trigonal Planar Electron Geometry
• When there are three electron groups around the
central atom, and one of them is a lone pair, the
resulting shape of the molecule is called a trigonal
planar — bent shape
• The bond angle is less than 120°
– because the lone pair takes up more space
Kim Shih
Derivatives of Tetrahedral Electron Geometry
Pyramidal & Bent Molecular Geometries
• When there are four electron groups around the
central atom, and one is a lone pair, the result is
called a trigonal pyramidal shape
– because it is a triangular-base pyramid with the central
atom at the apex
• When there are four electron groups around the
central atom, and two are lone pairs, the result is
called a tetrahedral—bent shape
– it is planar
– it looks similar to the trigonal planar—bent shape, except
the angles are smaller
• For both shapes, the bond angle is less than 109.5°
Kim Shih
Methane (CH4)
Kim Shih
Trigonal Pyramidal Shape
(NH3)
Kim Shih
Tetrahedral–Bent Shape (ClO2-1 )
Kim Shih
Molecular Shapes: The VSEPR Model
Four Charge Clouds(CH4 , NH3, H2O)
Kim Shih
Molecular Shapes: The VSEPR Model
Five Charge Clouds
Kim Shih
Replacing Atoms with Lone Pairs
in the Trigonal Bipyramid System (SF4)
Shape: Seesaw
Kim Shih
T–Shape (BrF3)
Kim Shih
Linear Shape (XeF2)
Kim Shih
Derivatives of the
Trigonal Bipyramidal Electron Geometry
• When there are five electron groups around the central atom, and
some are lone pairs, they will occupy the equatorial positions first
because there is more room
• When there are five electron groups around the central atom, and
one is a lone pair, the result is called the seesaw shape
• When there are five electron groups around the central atom, and
two are lone pairs, the result is called the T-shaped
• When there are five electron groups around the central atom, and
three are lone pairs, the result is a linear shape
• The bond angles between equatorial positions are less than 120°
• The bond angles between axial and equatorial positions are less
than 90°
– linear = 180° axial–to–axial
Kim Shih
Molecular Shapes: The VSEPR Model
Kim Shih
Square Pyramidal Shape (SbCl5 2-)
Sb(Antimony, 5A group)
Kim Shih
Square Planar Shape (XeF4)
Kim Shih
Derivatives of the
Octahedral Geometry
• Even number lone pair will take a position opposite the
previous lone pair
• When there are six electron groups around the central
atom, and one is a lone pair, the result is called a square
pyramid shape
– the bond angles between axial and equatorial positions is less
than 90°
• When there are six electron groups around the central
atom, and two are lone pairs, the result is called a
square planar shape
– the bond angles between equatorial positions is 90°
Kim Shih
Kim Shih
Kim Shih
Illustrations of Molecular Geometries of Molecules
Using 3-D Notations
Predicting the Shapes
Around Central Atoms
1. Draw the Lewis structure(count valence e- first)
2. Determine the number of electron groups
around the central atom
3. Classify each electron group as bonding or lone
pair, and count each type
– remember, multiple bonds count as one group
Kim Shih
Brain Exercise
Kim Shih
Predict the molecular geometry in
SiF5─
A. Trigonal bipyramid 59%
B. Square Pyramidal
C. Square planar
34%
D. T Shape
E. Bent
7%
0% 0%
1 2 3 4 5
Kim Shih
Predict the molecular geometry and bond angles in SiF5─
Si least electronegative
5 electron groups on Si
Si is central atom
Kim Shih
Predict the molecular geometry and
bond angles in ClO2F
2% A. Tetrahedral
56% B. Trigonal pyramidal
5% C. Linear
34% D. Trigonal planar
2% E. Octahedral
Kim Shih
Predict the molecular geometry and bond angles
in ClO2F
Cl least electronegative
4 electron groups on Cl
Cl is central atom
Bond angles
O–Cl–O < 109.5°
O–Cl–F < 109.5°
Kim Shih
Determine the electron geometry (eg) and
molecular geometry (mg) of XeF2.
A. eg=linear, mg=linear
63%
B. eg=trigonal bipyramidal,
mg=linear
C. eg=trigonal bipyramidal,
mg=bent
17%
D. eg=tetrahedral, mg=bent
7% 7% 5%
E. eg=tetrahedral, mg=linear
1 2 3 4 5
Kim Shih
eg=trigonal bipyramidal, mg=linear
Kim Shih
Determine the electron geometry (eg) and
molecular geometry (mg) of XeF4
B. eg=trigonal bipyramidal,
mg=linear
C. eg=octahedral, mg=
Square Planar
D. eg=tetrahedral, mg=bent
5% 3%
E. eg=tetrahedral, mg=linear
0% 0%
1 2 3 4 5
Kim Shih
Electron – octahedral
Molecular – square planar
Kim Shih
Determine the electron geometry, molecular
geometry and idealized bond angle of
the following………
1. PF3 Electron- tetrahedral, molecular- trigonal pyramidal,
Bond angle< 109.5°
2. SBr2 Electron – tetrahedral, molecular – bent
Bond angle <109.5 °
3. CHCl3 Electron – tetrahedral, molecular – tetrahedral
Bond angle =109.5 °
Electron – linear, molecular – linear
4. CS2
Bond angle =180 °
Electron- tetrahedral, molecular- trigonal pyramidal,
5. NF3
Bond angle< 109.5°
Kim Shih
Multiple Central Atoms
• Many molecules have larger structures with many
interior atoms
• We can think of them as having multiple central atoms
• When this occurs, we describe the shape around each
central atom in sequence
shape around left C is tetrahedral H O
| ||
shape around center C is trigonal planar H C C O H
|
shape around right O is tetrahedral-bent
H
Kim Shih
Describing the Geometry
of Methanol
Kim Shih
Describing the Geometry
of Glycine
Kim Shih
Predict the molecular geometries in H3BO3
oxyacid, so H attached to O
B least electronegative 34 electron
electron groups
groups on
on BO
Kim Shih
Polarity of Molecules
• For a molecule to be polar it must
1. have polar bonds
electronegativity difference - theory
bond dipole moments - measured
2. have an unsymmetrical shape
vector addition
• Polarity affects the intermolecular forces of attraction
therefore boiling points and solubility
like dissolves like
• Nonbonding pairs affect molecular polarity, strong pull
in its direction
Kim Shih
Molecule Polarity
• The bonding electrons are pulled toward the O ends of the molecule
equally because O is more electronegative (EN) than the C atom.
– The net result is a nonpolar molecule.
Molecule Polarity
Kim Shih
Vector Addition
Vector Addition: One Dimension
One Dimension:
• To add two vectors that lie on
the same line, assign one
direction as positive.
Kim Shih
Predict whether NH3 is a polar molecule
ENN = 3.0
2. Determine if the bonds ENH = 2.1
are polar 3.0 − 2.1 = 0.9
therefore the
bonds are polar
covalent
Kim Shih
Predict whether NH3 is a polar molecule
3) Determine whether
the polar bonds add
together to give a
net dipole moment
a) vector addition
b) generally, asymmetric The H─N bond is polar. All the sets of
shapes result in bonding electrons are pulled toward the
N end of the molecule. The net result is
uncompensated a polar molecule.
polarities and a net
dipole moment
Kim Shih
Brain Exercise
Kim Shih
Decide whether the following molecules Are polar
Trigonal
Bent Trigonal
Planar
2.5
B. 1
C. 2
D. 3
22%
E. 4
14%
4%
2%
1 2 3 4 5
Kim Shih
Where does Decaf coffee come from?
caffeine
Kim Shih