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Chapter 1: Bonding and Isomerism

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Page 1: Chapter 1: Bonding and Isomerism - HUMSC

Chapter 1: Bonding and Isomerism

Page 2: Chapter 1: Bonding and Isomerism - HUMSC

Modern View of Atomic Structure

• An atom is: the smallest particle of an element that retains all of the chemical properties of that element.

• Size of an atom:

– Mass: 1 atomic mass unit (amu) = 1.66054 x 10-24g

– Diameter: ~1 x 10-10 to ~5 x 10-10 M

= 100 to 500 pm

= 1 – 5 Å (angstrom) where 1 Å = 10-10 m

Page 3: Chapter 1: Bonding and Isomerism - HUMSC

Modern View of Atomic Structure

• Atoms contain: protons, neutrons and electrons.

• Protons & electrons (e-) are charged!

– Charge = 1.602 x 10-19 coulombs.

– “Electronic charge” = charge on 1 e-

e- charge is -1, proton charge is +1

neutrons have no charge (neutral)

Page 4: Chapter 1: Bonding and Isomerism - HUMSC

Modern View of Atomic Structure

• Protons and neutrons are ~1837 times the mass of an e-

particle Mass (amu)

(mass g)

Electronic

charge

location

e- 5.468 x 10-4

(9.110 x 10-28)

-1 Outside

nucleus

proton 1.0073(1.6727 x 10-24)

+1 nucleus

neutron 1.0087(1.6750 x 10-24)

0 nucleus

Page 5: Chapter 1: Bonding and Isomerism - HUMSC

Modern View of Atomic Structure

• Protons and neutrons are located in the nucleus which is small.

– Most of the mass of the atom is due to the nucleus.

• Electrons are located outside the nucleus.

– Most of the volume of an atom is due to the electrons.

Page 6: Chapter 1: Bonding and Isomerism - HUMSC

Isotopes

• boron has two common isotopes, 10B and 11B

• Both have 5 protons and 5 electrons, but 5 and 6 neutrons respectively.

• NOTE: isotopes have the SAME chemical properties, the only difference is their mass and how they decay in nuclear decay processes.

• Chemical properties are determined by the ELECTRONS!

Page 7: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Symbols of Atoms

Valence shell e- are the outer most shell of e-

and are involved in chemical bonding.

- they are the highest energy “s” and “p” e-

- number of valence shell e- = group number

- useful to show these as Lewis symbols or electron-dot symbols

Page 8: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Symbols of Atoms (cont’d)

The element symbol is used to represent the core e- and a dot for each valence shell e-

Four regions around the symbol (top, right, bottom and left) correspond to the four orbitals, each can hold 2 e- i.e.

..

Cs· 6s1 ·Al· 3s23p1

·C· 2s22p2 :Br: 4s24p5

.

.

.

.

Elements in the same group have the same valence shell e- configuration

Page 9: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Symbols of Atoms (cont’d)

Lewis Structures: G.N. Lewis developed one of the earliest successful pictures of chemical bonding, stated as the octet rule: atoms tend to gain, lose or share electrons to achieve a noble gas e- configuration, 8 valence shell e- (in 4 orbitals).

There are two possible types of bonds to consider, ionic and covalent.

Page 10: Chapter 1: Bonding and Isomerism - HUMSC

Ionic Bonding

An ionic bond is an electrostatic attraction between positive & negative ions resulting from e- transfer.

The resulting e- configuration of both ions are those of the nearest noble gas, Ne and Kr respectively, both satisfy the octet rule.

N a B r+ N a +B r+

. .

: : : :. . . .

. . -

Page 11: Chapter 1: Bonding and Isomerism - HUMSC

Ionic Bonding (cont’d)

Note:

Na is on left of PT low IE

Cl is on right of PT high EA

Na transfers an e- to Cl

This is common for metals and nonmetals

Page 12: Chapter 1: Bonding and Isomerism - HUMSC

Ionic Bonding (cont’d)

The resulting compound is an array (lattice or crystal structure) of positive & negative ions packed so attractive forces between ions of opposite charges are maximized, & repulsive forces between like charges are minimized.

Page 13: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding

Ionic bonds occur when an e- is transferred between a metal and nonmetal.

What about between 2 nonmetals?

In these cases the atoms can obtain a complete octet by sharing e- between them: a covalent bond results!

Page 14: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

H2 is the simplest example, neither atom will lose or gain an e- as the IE is too high and the EA too low they share the 2 e-

The bond is a balance between e- - e- and nuc - nuc repulsions and e- - nuc attractions

The bond forms as the e- - nucattraction is stronger than the nuc-nuc and e- - e- repulsions, see lower figure.

Page 15: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

The result is both atoms have a [He] e-

configuration, i.e.

The bond is commonly display as a line rather than a pair of e- (:), i.e.

H - H rather than H : H

H · ·H+ H : H

Page 16: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

A second general version of a covalent bond is possible. This occurs when BOTH e- come from one atom: a coordinate covalent bond

i.e.

NH3 + H+→ NH4

+

NH

HH H N

+H

H

H

..

+ H+

Page 17: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

There is a difference in what is meant by the bond lengths in ionic and covalent compounds:

Ionic “bond lengths” are the sum of the ionic radii of the two ions (this is a “hard sphere” model of atoms).Covalent bonds are shorter than the sum of the atomic radii of the two atoms, which is a result of overlap or “merging” of the orbitals - a key feature of covalent bonds!

Page 18: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

Ionic bonds are the result of strong electrostatic attractions between oppositely charged ions.

Covalent bonds are also held together by electrostatic attraction but involve the 2 nuclei to the 2 e- which “spend” most of their time between the 2 nuclei.

Page 19: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

Other examples of Lewis structures of covalent compounds:

Unshared e- are shown as a pair of dots and are called lone pair or nonbonding electrons.

Cl Cl

H Cl

Cl +: : : :.. .. ..

.. ...

Cl: :..

.

or

H + Cl: :..

. .

..

..:

Page 20: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

The number of bonds an atom forms can be predicted by the number of e- it needs to complete its octet, i.e.

group 7A: has 7 e- in its valence shell one single bond.

H ClH + Cl: :..

. .

..

..:

Page 21: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

group 6A: has 6 e- in its valence shell two single bonds.

group 5A: has 5 e- in its valence shell three single bonds.

H O

HH + O: :. . ..

:

.2

H N

H

HH + N:. . ..

.3 .

Page 22: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

group 4A: has 4 e- in its valence shell four single bonds.

The octet can also be completed by forming more than one bond between a pair of atoms, i.e. double bonds. Carbon can form two double bonds. A double bond shares two pairs of e- between the two atoms.

H C

H

H

H

H + C. .

.4 ..

O C OO + C. .

.2 ..: :

. CO O: : ::. .

. . . . . .

. .

. .

. .. .

Page 23: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

A triple bond shares three pairs of e- between the two atoms as in the case of N2.

Question – what other combinations of bonds are possible for carbon? For nitrogen?

N NN.. .

.. + N.

. .

.. : :

Page 24: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding (cont’d)

The more e- pairs that atoms share the closer the atoms are pulled together. A triple bond is shorter than a double bond which is shorter than a single bond.

Bond Length (pm) Bond Length (pm) Bond Length (pm)

H-C 110 C-C 154 C=C 134

H-N 98 C-N 147 C≡C 121

H-O 94 C-O 143

H-F 92 C-F 141

H-Cl 127 C-Cl 176

Page 25: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity

So far two types of bonds have been described:

- ionic – complete e- transfer

- covalent – equal sharing of e-

There is a vast middle ground where the e- are shared, but not equally: polar covalent bonds.

Page 26: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

Consider an ionic bond. The e- cloud is not rigid and can be distorted:

As a result of the positive charge of the cation, the e- from the anion are drawn towards it, distorting the shape of the e- density.

-+

Page 27: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

Electronegativity: (EN) is the ability of an atom to attract bonding e- to itself.

- normally use Pauling’s scale

- relative scale where

F is the most EN atom

and has a value of 4.0.

- there are periodic

trends similar to

IE & EA

Page 28: Chapter 1: Bonding and Isomerism - HUMSC
Page 29: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

Although EN is a periodic property it is not the same as IE or EA which are properties of atoms in the gas state.

EN is the attraction for a pair of bonding e-, this only applies to molecules!

All three quantities are however dependent on the Zeff of the atom.

Of the three quantities, EN is the most useful because many compounds are molecular, not ionic.

Page 30: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

Where is the split between ionic and polar-covalent? Somewhere between 1.7 – 2.1, i.e.

Cs+ Cl- DEN is 3.0 (Cl) - 0.8 (Cs) = 2.2, there is e- transfer ➔ ionic bond

Cl-Cl DEN is 3.0 (Cl) – 3.0 (Cl) = 0, a non-polar covalent bond (equal sharing)

H-Cl DEN is 3.0 (Cl) – 2.1 (Cl) = 0.8, a polar covalent bond (unequal sharing)

Page 31: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

The result of polar covalent bonding is that the e- pair spend more time near the more EN atom. This means it will acquire a permanent excess negative charge. The other atom acquires a permanent excess positive charge. This is indicated by a d+ or d-

(where d means a “partial charge”) or a dipole arrow which points from the positive end of the bond to the negative end.

H Cl H Cl

d+ d-

Page 32: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

A molecule whose centers of positive & negative charge do not coincide is polar. A polar molecule has opposite charges separated by a distance; it is a dipole and has a dipole moment.

dipole moment = magnitude of charge x distance between charges = Qr

The magnitude of the charge is indicated by the difference in EN, and the distance of the bond length.

Page 33: Chapter 1: Bonding and Isomerism - HUMSC

Bond Polarity & Electronegativity (cont’d)

Experimentally the dipole moment is determined by how the molecule reacts to an electric field.

The dipole moment has units of debye (D), where 1 D = 3.34x10-30 coul·m

The more polar the molecule the stronger the dipole moment. The molecular dipole moment is the vector sum of the bond moments, i.e.

Page 34: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures

A Lewis structure is a very simple model of chemical bonding and the structure of molecules.

It only deals with valence shell e- the octet rule!

Lewis structures do not however explain the observed geometry of molecules, explain how or why bonds form, or how the e- are shared.

Page 35: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Procedure for obtaining good Lewis structures:1) determine total number of valence shell e-

(including ionic charge if present).2) draw a skeleton of the molecule connected

with single bonds.3) determine number of remaining e-.4) complete the octet of the terminal atoms.5) left over e-? Place them on the central atom.6) central atom short e-? Use lone pair e- from

terminal atoms to create multiple bonds.7) determine the formal charges of all atoms.

Page 36: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Formal Charges: (FC)

1) all lone pair e- belong to the atom.

2) all bonds are split 1 e- to each atom. This is a homolytic bond cleavage. (breaks the bond equally).

3) formal charge: # valence e- - # assigned e-

Page 37: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Formal charges (cont’d)

Note: oxidation states can be calculated the same way but assign both e- of a bond to the more EN atom (this is a heterolytic bond cleavage)

H C l. .

: :. .

H C l. .

: :. .

O x i d a t i o n S t a t e

F o r m a lC h a r g e

Page 38: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Example 1: H3O+

1) # e-: 6 + 3 – 1 = 8

2) form 3 bonds

3) 2 e- remain

4) Place on O

5) O octet

6) Formal charges

H O+

H

H

..

Page 39: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Example 2: AsO33-

1) # e-: 5 + 3(6) + 3 = 26

2) form 3 single bonds

3) 20 e- remain

4) O needs 6, As needs 2

5) All octets

6) Formal charges

O As O

O

:..

..

..

..

.. ..

: :

:-

-

-

Page 40: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Example 3: CH2O

1) # e-: 4 + 2(1) + 6 = 122) try 3 single bonds3) 6 e- remain4) O 6 but C?5) Form a double bond6) Both O & C octets7) Formal charges

H C H

O: :

Page 41: Chapter 1: Bonding and Isomerism - HUMSC

Lewis Structures (cont’d)

Example 4: CO

1) # e-: 4 + 6 = 102) try 1 single bond3) 8 e- remain4) C needs 6 as does O short 4 e-

5) Share 4 more e- - triple bond6) Octets7) Formal charges

C O: :

-1 +1

Page 42: Chapter 1: Bonding and Isomerism - HUMSC

Formal Charge

• Formal charge: the charge on an atom in a molecule or polyatomic ion.– Write a Lewis structure for the molecule or ion.

Page 43: Chapter 1: Bonding and Isomerism - HUMSC

Resonance

There are molecules (or ions) for which more than one correct Lewis structure can be drawn, these equivalent Lewis structures are resonance structures.

The assumption in these diagrams is that the atom positions do not change, we are only allowed to change the distribution of e-, i.e. the bonds and lone pairs.

Lewis structures do not always explain properties of molecules. Resonance theory is a second layered approach.

Page 44: Chapter 1: Bonding and Isomerism - HUMSC

Resonance (cont’d)

Example 1: NO3-

1) # e-: 5 + 3(6) + 1 = 242) try 3 single bonds3) 18 e- remain4) Each O needs 6, leave 2 short5) Share 1 pair but which one?6) Pick one O, all octets7) Formal charges

O N+

O

O:

..:

:

..

..

....

Page 45: Chapter 1: Bonding and Isomerism - HUMSC

Resonance (cont’d)

Example 1: NO3- (cont’d)

Depending on your choice of the double bond to oxygen, there are three possible structures differing in the location of the double bond and charges on the oxygen.

O N+

O

O

O N+

O

O

O N+

O

O:

..:

:

..

..

....

..:

:

.. ..

....:

:..

....

:

:

..

:

Page 46: Chapter 1: Bonding and Isomerism - HUMSC

Resonance (cont’d)

Example 2: N2O

1) # e-: 2(5) + 6 = 162) try 2 single bonds3) 12 e- remain4) 16 e- for octets – 4

short5) Options – 2 double

bonds, 1 triple & 1 single

6) Octets7) Formal charges8) Which is better and

why?

N N O

N N+

O

N N+

O:..

:..

..

..

: :..

..

..

..

..

..

Page 47: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap

Sigma (s) bonds: are characterized by a region of high e-

density along the internuclear axis.

Bond is attraction of e- - nuclei& repulsion of nuclei. Result is Morse Potential Energy curve (above)

Page 48: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap (cont’d)

The strength of a bond depends on:

1) the degree of orbital overlap and

2) the relative energies of the atomic orbitals which form the bond.

Sigma (s) bonds can be formed by the overlap of: 2 “s” orbitals, an “s” and “p” (end on), 2 “p” (end on), an “s” and a hybrid, or 2 hybrid orbitals.

Page 49: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap (cont’d)

Because the e- density is symmetric about the internuclear axis groups can rotate about the bond without breaking it.

C C

H

HH

H

H

H

C C

H H

H HH H

Page 50: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap (cont’d)

There is one other type of bond, a pi (p) bond. In contrast to a sigma bond the e- density in a pi bond is not located on the internuclear axis, but rather on either “side” of it.

p bonds are formed by the side to side overlap of 2 “p” orbitals

Page 51: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap (cont’d)

The molecule is rigid as a result of the required side to side overlap of a p bond. Rotation about the C-C bond by 90° breaks the p bond.

Page 52: Chapter 1: Bonding and Isomerism - HUMSC

Covalent Bonding & Orbital Overlap (cont’d)

The side to side overlap in p bonds is less efficient that for s bonds pbonds are weaker than s bonds.

For p bonds to exist there must be a second bond (s) resulting in a double bond. In the case of two p bonds, a triple bond results. The “first” bond of a multiple bond is always a sbond.

Page 53: Chapter 1: Bonding and Isomerism - HUMSC

Bonding Theories

Any theory of bonding needs to explain why & how bonds form, and the resulting observed molecular geometries.

There are two basic theories Valence Bond and Molecular Orbital (MO) theory. Both use the idea of orbital overlap to create bonds. The main difference is when orbitals are allowed to merge.

Page 54: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory

Bonds are created by orbital overlap to produce s or p bonds.

To explain many observed molecular geometries, pure “s” and “p” atomic orbitals are combined to produce a set of “hybrid” orbitals on atoms. These hybrid orbitals then form bonds between atoms producing the correct geometry.

Page 55: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory (cont’d)

Orbitals are combined in various portions to make equivalent hybrid orbitals, i.e.

AOs(#(s, p)) hybrid orientation

1, 1 2 sp linear

1, 2 3 sp2 trigonal planar

1, 3 4 sp3 tetrahedral

Page 56: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory (cont’d)

Note: for a given atom, all hybrid orbitals have the same energy.

The total number hybrid orbitals equals the total number of AOs used to make them

Unhybridized “p” orbitals can be used to form pbonds (or remain empty).

Page 57: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory: sp3

sp3 hybridization produces 4 equivalent hybrid orbitals in a tetrahedral geometry. The orbitals all have the same energy, i.e. see the figure below.

Page 58: Chapter 1: Bonding and Isomerism - HUMSC
Page 59: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory: sp3

The hybrid orbitals have two lobes similar to a “p” type orbital, but one is much larger than the other. The larger one is where the bonds will form, i.e. see the images below. The four hybrid orbitals will have a tetrahedral geometry.

Page 60: Chapter 1: Bonding and Isomerism - HUMSC

Valence Bond Theory: sp3

The hydrocarbons the C-H bond forms as the overlap between the C hybrid orbital and the H 1s, i.e. see the image below. The tetrahedral geometry results in bond angle of 109.5°.

Page 61: Chapter 1: Bonding and Isomerism - HUMSC

sp3 Hybrid Orbitals

– Figure 1.17 Orbital overlap picture of methane, ammonia, and water.

Page 62: Chapter 1: Bonding and Isomerism - HUMSC

sp2 Hybrid Orbitals

Page 63: Chapter 1: Bonding and Isomerism - HUMSC

sp2 Hybrid Orbitals• A single sp2 hybrid orbital has two lobes of

unequal size. – The three sp2 hybrid orbitals are directed toward the

corners of an equilateral triangle at angles of 120°.

– The unhybridized 2p orbital is perpendicular to the plane of the three sp2 hybrid orbitals.

Page 64: Chapter 1: Bonding and Isomerism - HUMSC

sp2 Hybrid Orbitals

– Figure 1.19 Covalent bonding in ethylene. Ethylene is a planar molecule.

Page 65: Chapter 1: Bonding and Isomerism - HUMSC

sp2 Hybrid Orbitals– Figure 1.20 A carbon-oxygen double bond consists of

one sigma (s) bond and one pi (p) bond.

Page 66: Chapter 1: Bonding and Isomerism - HUMSC

sp Hybrid Orbitals

Page 67: Chapter 1: Bonding and Isomerism - HUMSC

sp Hybrid Orbitals• A single sp hybrid orbital has two lobes of unequal size.

– The two sp hybrid orbitals lie in a line at an angle of 180°.

– The two unhybridized 2p orbitals are perpendicular to each other and to the line through the two sp hybrid orbitals.

Page 68: Chapter 1: Bonding and Isomerism - HUMSC

sp Hybrid Orbitals– Figure 1.22 Covalent bonding in acetylene. A

carbon-carbon triple bond consists of one sigma (s) bond and two pi (p) bonds.

Page 69: Chapter 1: Bonding and Isomerism - HUMSC

Hybrid Orbitals

Page 70: Chapter 1: Bonding and Isomerism - HUMSC

Functional Groups

A functional group is an arrangement of atoms with distinctive physical and chemical properties.

Hydrocarbons – only contain C & H

Alkanes – C-C single bonds

H C C

H

H

H

H

H C C

CC

C

H

H

H

H

H

HH

H

H

H

ethane cyclopentane

Page 71: Chapter 1: Bonding and Isomerism - HUMSC

Functional Groups (cont’d)

C-C multiple bonds

C-O single bonds

C C

H

H H

H

C

C C

C

CC

H

H

H H

H

H

C C CH

ethene(an alkene)

ethyne(an alkyne)

benzene(an arene)

H C O

H

H

H H C O

H

H

C H

H

H. .

. .

. .

. .

m e th a n o l(a n a lc o h o l)

d im e th y l e th e r (a n e th e r)

Page 72: Chapter 1: Bonding and Isomerism - HUMSC

Functional Groups (cont’d)

C-O double bonds

C-O single & double bonds

H C C

H

H

H

O

H C C

H

H

C H

H

H

O

aceta ldehyde(an a ldehyde)

ace tone(a ke tone)

: : : :

H C C

H

H

O

O

H H C C

H

H

O C

O

H

H

H

a ce tic a c id(a ca rb o xy lic a c id )

m e th y l a ce ta te (a n e s te r)

: : : :

..

..

..

..

Page 73: Chapter 1: Bonding and Isomerism - HUMSC

Functional Groups (cont’d)

Functional groups containing Nitrogen

Functional groups containing Sulfur

H C S

H

H

H H C S

H

H

C H

H

H. .

. .

. .

. .

m e th a n e th io l (a th io l)

d im e th y l s u lf id e (a th io e th e r)

H C N

H

H

H

H

H C C

H

H

H

N H

H C C

H

H

N H

H

O

H C C

H

H

N

..

..

methylamine (an amine)

acetamide(an amide)

..

ethylimine(an imine)

:

acetonitrile (a nitrile)

::

Page 74: Chapter 1: Bonding and Isomerism - HUMSC

Functional Groups (cont’d)

Functional groups containing halides

H C B r

H

H

H C C

H

H

C l

O

. .

. .

. .

b ro m o m e th a n e (a h a lo a lk a n e )

:. .

::

:

a c e ty l c h lo r id e(a n a c y l h a lid e )

Page 75: Chapter 1: Bonding and Isomerism - HUMSC

Structural Formulas

Full: indicate every atom in the molecule, .i.e.

CH2CH

CH3

CH3 CH2 CH2 CH3 CH2CH2CH3 C CH3

CH3

CH3

CH2CH

CH3

CH3 CH2 CH2 CH3 CH2CH2CH3 C CH3

CH3

CH3

CH2CH2NH2 CH2 CH2 CH2 NH2CH2CH2NH2 CH2 CH2 CH CO

OH

NH2

CH2CH2NH2 CH2 CH2 CH2 NH2CH2CH2NH2 CH2 CH2 CH CO

OH

NH2

CC

C

CC

C

H

CH

HH

CH2

H

C

CH3 O

OH

CH

CH3

CH3CC

C

CC

C

H

O

CH

H

H

CO

CH3O

HO

CC

C

CC

C

H

CH

HH

CH2

H

C

CH3 O

OH

CH

CH3

CH3CC

C

CC

C

H

O

CH

H

H

CO

CH3O

HO

Page 76: Chapter 1: Bonding and Isomerism - HUMSC

Structural Formulas

Condensed: group subsets of atoms together. i.e.

(CH3)2-(CH2)3-CH3 CH3-CH2-CH2-C(CH3)3

Or

(CH3)2(CH2)3CH3 CH3CH2CH2C(CH3)3

Even the condensed formula can be very tedious to do, therefore we need to better way to convey this information: line diagrams

Page 77: Chapter 1: Bonding and Isomerism - HUMSC

Line Diagrams

1. Carbon and hydrogen atoms are not shown unless needed for special emphasis or clarity.

2. All atoms other than carbon and hydrogen are explicitly shown.

3. A carbon atom is assumed to be at the end of every line segment or at the intersection of two or more lines, which are used to depict bonds.

4. Multiple bonds are shown with multiple lines.5. The proper number of hydrogen atoms to provide four bonds

to each carbon atom is implied including formal charges. Hydrogen atoms on other atoms such as oxygen and nitrogen are explicitly indicated.

6. Lone pair electrons are not normally shown unless needed for special emphasis or clarity.

Page 78: Chapter 1: Bonding and Isomerism - HUMSC

Line Diagrams (cont’d)

C H3

C H2

C H C l C H2

C H3 C H

2

C HC H3

C l

C H2

C H3

C lis

is

CCH

CH3

CH3

CH2

CH2

CCH

3

O O

is

O

O

Page 79: Chapter 1: Bonding and Isomerism - HUMSC

Line Diagrams (cont’d)

3D: it is often necessary to convey the 3-dimensional nature of molecules in line drawings. The conventions are:

– atoms that lie in the plain of the page are just lines

– Atoms above the plane of the page have a solid wedge coming to them

– Atoms behind the plane of the page have a dashed wedge to them

– Note: you usually try to convey correct bond angles if possible

Page 80: Chapter 1: Bonding and Isomerism - HUMSC

Line Diagrams (cont’d)

C HH

H

H

C

H

H HH

m e t h a n eL e w is S t r u c t u r e

m e t h a n e3 D S t r u c t u r e

Page 81: Chapter 1: Bonding and Isomerism - HUMSC

Isomers

• Structural (or constitutional) isomers: have the same chemical formula but the atoms are bonded together in a different pattern, i.e.

C C O

H

H

HH

H

H

H C O

H

H

C H

H

H. .

. .

. .

. .

e th a n o l( a n a lc o h o l)

d im e th y l e th e r ( a n e th e r )

C C C

H

H

CH

H

H H H

H H

H H C C

H

H

C H

H

HH

CH3

butane 2-methylpropane

Page 82: Chapter 1: Bonding and Isomerism - HUMSC

Isomers

Structural isomers have different physical and chemical properties:

C H3

C H2

C H2 O H C H

3C H C H

3

O H

1 - p r o p a n o l( b p 9 7 . 4 C )

2 - p r o p a n o l( b p 8 2 . 4 C )

Page 83: Chapter 1: Bonding and Isomerism - HUMSC

Isomers

Be careful not to confuse the same molecule drawn in different orientations, i.e.

Cl C C

Cl

H

H

H

H

H C C

Cl

Cl

H

H

H

Cl C C

H

Cl

H

H

H

1,1-dichloroethane CHCl2CH3 (bp 57.3 C)

C l C C

H

H

C l

H

H

C l C C

H

H

H

C l

H

H C C

H

C l

H

C l

H

1 ,2 -d ich lo ro e th a n e C H 2C lC H 2C l (b p 8 3 .5 C )

Page 84: Chapter 1: Bonding and Isomerism - HUMSC

Arrows

Arrows are used in a number of ways in chemistry. The most common is in reaction equations, where two types of arrows are used:

→ forms or produces (implies 100%)

equilibrium (rxn can go forward & backward)

↔ double headed arrows are for resonance

Page 85: Chapter 1: Bonding and Isomerism - HUMSC

Arrows (cont’d)

Organic chemistry also makes extensive use of “curly” arrows. These are used to indicate the movement of electrons in a chemical reaction. A double headed arrow is used for two electrons, and a single headed or fishhook arrow for the movement of a single electron (these are “free radical” processes).

The rules are very simple, the tail of the arrow starts on the electron(s) that will move and the head of the arrow points to where they will end up.

Page 86: Chapter 1: Bonding and Isomerism - HUMSC

Arrows (cont’d)

For example:In this process two bonding electrons (the p electrons) move to the O atom which gains one extra electron and acquires a formal negative charge, while the C atom loses an electron and acquires a formal positive charge.

Of course the reverse process is possible.

O O+ -

OO+ -

Page 87: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases

Acid / base properties are very important in organic chemistry. You should know this material.

Bronsted-Lowry acids: donate a proton (H+).

Bronsted-Lowry bases: accept a proton.

Page 88: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

The generic acid reaction is:

Note: H+ is really H-X+, i.e. H3O+

H A +H+ A-

Ka =[H+] [A-]

[HA]

pKa = -log10Ka

Page 89: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

• The more stable the conjugate base (A-) the greater the dissociation of the acid

• The greater the dissociation the stronger the acid

• Larger Ka implies a strong acid

• The larger the Ka the smaller (more negative) the pKa

• Factors that stabilize A- are very important!

Page 90: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Key factors that stabilize A-:1) Electronegativity: comparing atoms in the same row of the

periodic table, the more electronegative the anionic atom in the conjugate base, the better it accepts the negative charge and the stronger the acid, i.e. (HF >) H2O > HN3 > CH4

2) Size: comparing atoms in the same group in the periodic table, the larger the anionic atom the weaker the bond and the increased size allows for greater charge stability (lower charge density), i.e. HI > HBr > HCl > HF

3) Resonance: the larger the number of resonance structures the more atoms the charge is distributed over and the lower the charge density, i.e. R-O2

- > R-O-

4) Inductive effectives: electron withdrawing groups on the a-carbon increase acidity by stabilizing the conjugate base

5) Hybridization effects: sp > sp2 > sp3 C-H

Page 91: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Examples:

H C lHO

H O+

H

H

H

+ + C l -

HO

+

H

H

O H

O

HO

HO

O

+ +

O

O

O

Oresonance

Page 92: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Examples:

OH

O

O

O

ClHOH

O

Cl

OH

O

OH

O

ClOH

OCl

OH

O

Cl

pKa = 4.7 pKa = 2.9

Cl atom pulls electondensity towards itself as it is more EN than C

Electron denisty is pulledtowards the C atom

Electron density is pulledtowards the O atom

Inductive Effects

Ka = 1.5 x 10-5 Ka = 3.0 x 10-5 Ka = 8.9 x 10-5 Ka = 1.4 x 10-3

butanoic acid 4-chlorobutanoic acid or

-chlorobutanoic acid

3-chlorobutanoic acid or

-chlorobutanoic acid

2-chlorobutanoic acid or

a-chlorobutanoic acid

Page 93: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Examples:

CH CH CH2

CH2

CH3

CH3

Hybridization Effects

Ka = 10-25

pKa = 25

Ka = 10-44

pKa = 44

Ka = 10-55

pKa = 55

Page 94: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Comparisons:

Compound pKa Compound pKa Compound pKa

H2SO4 -11 phenol ~10 Alkynes ~25

HCl -7 Water ~14 Amines ~35

HF 3.2 Alcohols ~16 Alkenes ~44

Carboxylicacid

~5 Thiols 16-19 Alkanes ~55

Page 95: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Bronsted-Lowry Bases:

1) Electronegativity: within the same row of the periodic table, the more electronegative the atom the weaker the base.

2) Size: within the same group of the periodic table, the larger the atom the lower the electron density and the weaker the base.

3) Resonance: the greater the amount of resonance the lower the charge density and the weaker the base.

Page 96: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Examples of bases:

R NH R O

H O

R NH2

NH -

amide ions

pKa ~35

alkoxides

pKa ~16

amines

pKa ~9

> >

Page 97: Chapter 1: Bonding and Isomerism - HUMSC

Acids and Bases (cont’d)

Lewis Acid / Bases: Lewis acids are electron pair acceptors, while Lewis bases are electron pair donors.

Common Lewis acids; B, Al and transition metal compounds, i.e.

F

BF

F

Cl

AlCl

Cl

Br Br FeBr3

Br+

Fe Br

Br

Br

Br

both B and Al canaccept a lone pairof electrons

+

Fe acts as a Lewis acid and adds the Br moleculewhich make the terminal Br very reactive