1. Unit 2: SMELLS Molecular Structure and Properties
Living By Chemistry
Unit 2: SMELLS
Molecular Structure and Properties

2. In this unit you will learn:
how atoms form molecules
to predict the smell of a compound
to interpret molecular models
how the nose detects different molecules
about amino acids and proteins

3. Section I: Speaking of Molecules
Lesson 1 Sniffing Around
Lesson 2 Molecules in Two Dimensions
Lesson 3 HONC if You Like Molecules
Lesson 4 Connect the Dots
Lesson 5 Eight is Enough
Lesson 6 Where’s the Fun?
Lesson 7 Create a Smell
Lesson 8 Making Scents

4. Lesson 1: Sniffing Around
Molecular Formulas

5. Smells Lesson 1: Sniffing Around ChemCatalyst
1. What do you think is happening when you smell something?
2. Why do you think we have a sense of smell?

6. Key Question
What does chemistry have to do with smell?

7. You will be able to:
detect patterns in chemical formulas and relate these patterns to a molecular property
create a hypothesis based on analysis of data

8. Prepare for the Activity
Work in groups of four.
Molecular Covalent Substances:
Covalently bonded = share valence e-
Consist of small, individual units = molecules
Molecular formula: formula of a molecular substance
showing the types of atoms in each molecule and the ratios of those atoms to one another.
Ex. Carbon dioxide CO2

9. Prepare for the Activity (cont.)
Chemicals may have very strong odors or be caustic. When smelling, don’t sniff directly from the container. Instead, use a wafting technique (use your hand to draw air toward you).

10. Discussion Notes
A possible hypothesis is “The smell of a substance can be predicted if you know its name and/or its chemical formula.”

11. Wrap Up What does chemistry have to do with smell?
Smell is related to molecular formula and chemical name.

12. Check-in
How would you expect a compound with the molecular formula C8H16O2 to smell? Explain.
How sure are you of your prediction?

13. Lesson 2: Molecules in Two Dimensions
Structural Formulas

14. Lesson 2: Molecules in Two Dimensions ChemCatalyst
Predict the smells of these three new molecules. Provide evidence to support your prediction.
Vial F: ethyl pentanoate
C7H14O2
Vial G: butyric acid
C4H8O2
Vial H: ethyl acetate

15. Key Question
How can molecules with the same molecular formula be different?

16. You will be able to:
describe the difference between structural formulas and molecular formulas
recognize isomers

17. Prepare for the Activity
Work in groups of four.

18. Discussion Notes
Even though the molecules in vials G and H have identical molecular formulas, they have different smells and therefore must be different somehow.
A structural formula is a two-dimensional drawing of a molecule showing how the atoms in a molecule are connected.

19. Discussion Notes (cont.)
Structural formula: diagram that shows how the atoms in a molecule are connected.
Each line represents a covalent bond.
There are several ways to draw the same structural formula without changing the identity of the molecule.
Ex. Forward, backward, or vertical

20. Discussion Notes (cont.)
When two molecules have the same molecular formula but different structural formulas, they are called isomers of each other.
Isomers: Molecules with the same molecular formula but different structural formulas.

21. Discussion Notes (cont.)

22. Discussion Notes (cont.)
Molecules can smell different even if they have the same molecular formula.
they are isomers
Molecules can smell similar even if they have different molecular formulas.

23. Wrap Up
How can molecules with the same molecular formula be different?
Structural formulas show how the atoms in a molecule are connected.
A molecular formula can be associated with more than one structural formula.
Isomers are molecules with identical molecular formulas but different structural formulas.
The smell of a molecule is a property that is related to its structure.

24. Check-in
For each compound, predict the smell or describe what information you would want in order to predict the smell.
a. C6H12O2 b. C6H15N

25. Lesson 3: HONC if You Like Molecules
Bonding Tendencies

26. Lesson 3: HONC if You Like Molecules ChemCatalyst
Examine the molecules on the slide. What patterns do you see in the bonding of atoms of hydrogen, oxygen, carbon, and nitrogen?

27. Key Question
What are the rules for drawing structural formulas?

28. You will be able to:
create accurate structural formulas from molecular formulas
identify and differentiate between isomers and molecules oriented differently in space
explain and utilize the HONC 1234 rule

29. Prepare for the Activity
Work in pairs.
Hydrogen H 1 bond
Oxygen O 2 bonds
Nitrogen N 3 bonds
Carbon C 4 bonds

30. Example Draw the structural formula for C3H8O: Connect carbon atoms
Insert O or N atoms
Add H atoms last

31. Discussion Notes
HONC 1234 = way to remember the bonding tendencies of H, O, N, and C atoms in molecules
When trying to decide whether two structures represent the same molecule - check how the atoms are connected
Imagine turning the molecule - if you can turn it to match another molecule, they are the same

32. Wrap Up What are the rules for drawing structural formulas?
The HONC 1234 rule indicates how many times hydrogen, oxygen, nitrogen, and carbon atoms tend to bond.
When a molecule is oriented differently in space, it is still the same molecule.

33. Check-in
Will any of the molecules shown on the following slide have similar smells? Explain your thinking.

34. Lesson 4: Connect the Dots
Lewis Dot Symbols

35. Lesson 4: Connect the Dots ChemCatalyst
These diagrams are called Lewis dot symbols.
Look at the Lewis dot symbols and answer the questions.
What is the relationship between the number of dots, the number of valence electrons, and the HONC 1234 rule?
Create a Lewis dot symbol for fluorine, F. How many bonds will fluorine make?

36. Key Question
How does one atom bond to another in a molecule?

37. You will be able to:
create accurate structural formulas using Lewis dot symbols
describe the type of bonding found in molecular substances
explain the chemistry behind the HONC 1234 rule

38. Prepare for the Activity
Work in groups of four.
Lewis dot symbol: A diagram that uses dots to show the valence electrons of a single atom.

39. Prepare for the Activity (cont.)
Each puzzle piece contains the correct number of valence electrons for that atom. It also contains the appropriate number of tabs for bonding.

40. Discussion Notes
You can use Lewis dot symbols to create Lewis dot structures.
Lewis dot structure: A diagram that uses dots to show the valence electrons of a molecule.

41. Discussion Notes (cont.)
A covalent bond is the sharing of a pair of electrons between two nonmetal atoms.
Bonded pair: A pair of electrons that are shared in a covalent bond between two atoms.

42. Discussion Notes (cont.)
Some valence electrons are not involved in bonding.
Lone pair: A pair of valence electrons not involved in bonding within a molecule. The two electrons belong to one atom.
lone pair of electrons
bonded pair of electrons

43. Discussion Notes (cont.)
Lewis dot structures for ionic compounds:
e- are transferred from metal cation to non-metal anion
NaCl
MgCl2
NaOH

44. Wrap Up How does one atom bond to another in a molecule?
A covalent bond is a bond in which two atoms share a pair of valence electrons.
Lewis dot symbols show the valence electrons in an atom and are used to predict bonding in a molecule.

45. Wrap Up (cont.)
In a Lewis dot structure, a pair of electrons that are shared in a covalent bond is called a bonded pair. Pairs of electrons that are not involved in bonding and belong to one atom are referred to as lone pairs.
The HONC 1234 rule indicates how many electrons are available for bonding in atoms of hydrogen, oxygen, nitrogen, and carbon.

46. Check-in
The molecular formula C4H10O has seven different isomers. Draw the structural formula of one of them.

47. Lesson 5: Eight is Enough
Octet Rule

48. Lesson 5: Eight is Enough ChemCatalyst
Draw the Lewis dot structure for the two covalently bonded molecules shown here. Explain how you arrived at your answer.
a. Cl2 b. O2

49. Key Question
How do atoms bond to form molecules?

50. You will be able to:
apply the octet rule to predict bonding in molecules
draw Lewis dot structures and structural formulas for molecules that contain double and triple bonds

51. Prepare for the Activity
Work in groups of four.
Octet rule: Nonmetal atoms combine so that each atom has a total of eight valence electrons by sharing electrons.

52. Prepare for the Activity (cont.)
Each atom in the molecule has an “octet” of valence electrons.
Note - H atoms don’t follow octet rule
H has a total of two electrons, like He
After bonding, each chlorine atom has a total of eight valence electrons surrounding it.
Cl2
PCl3
H2S

53. Discussion Notes Ex. carbon monoxide CO
HONC 1234 and the octet rule both help you figure out Lewis dot structures and structural formulas.
Both can be satisfied by using double and triple bonds appropriately
It is not possible to create a triple-bonded oxygen compound, according to the HONC rule.
There are exceptions to the bonding rules laid out here.
Ex. carbon monoxide CO

54. Discussion Notes Diatomic Molecules = molecules made of two atoms
Elements found as diatomic molecules in nature:
H, O, N, and halogens
Ex. H2

55. Wrap Up How do atoms bond to form molecules?
Elements form covalent bonds by sharing electrons until each atom has eight valence electrons. This is called the octet rule. Hydrogen is an exception. It forms bonds such that it has two valence electrons.
Atoms can form double and triple bonds to satisfy the octet rule.
When covalent bonds form, each atom resembles a noble gas in its electron configuration.

56. Check-in
1. One of these compounds has multiple bonds in it. Which one is it? Explain.
C4H10 C4H6
2. Draw one possible structural formula for C4H6.

57. Review – Draw structural formulas C4H11N C4H10 C5H12O C3H8O2

58. Review
Draw the structural formulas for the following, including lone pairs:
CCl4
NH3
C2H6O

59. Review How many lone pairs are in an N2 molecule?
How many bonded pairs?
How many bonds do H, O, N, and C atoms make?
How many bonds will Br make?

60. Review
Draw the structural formulas for the following, including lone pairs: C2H2 N2H2 H2O2

61. Review How do you know when a molecule will smell: Minty Fishy Sweet
Putrid
(Hint: # of O atoms and name ending)

62. Review Draw Lewis Dot Symbols for the following: Ar Se As Si
How many bonds will each of the atoms above form?

63. Review
Describe the structure, smell, and name ending for the following functional groups:
Ester
Carboxyl
Amine
Ketone

64. Lesson 6: Where’s the Fun?
Functional Groups

65. Lesson 6: Where’s the Fun? ChemCatalyst
Consider these compounds. List at least three differences and three similarities between the two molecules.
Molecule Molecule 2

66. Key Question
What does the structure of a molecule have to do with smell?

67. You will be able to:
identify and name basic functional groups within molecules
relate certain functional groups to certain smell categories
describe the naming patterns found among molecules associated with specific functional groups
deduce the probable smell of a compound from its name or structural formula

68. Prepare for the Activity
Work in pairs.

69. Discussion Notes A number of patterns emerge from the card sort.
Each group of molecules with a similar smell has something identical in its structure.

70. Discussion Notes (cont.)
This feature is found in all the sweet-smelling molecules in our sample.

71. Discussion Notes (cont.)
This feature is found in all the minty-smelling molecules in our sample.

72. Discussion Notes (cont.)
Functional group: A cluster of atoms in a molecule that is responsible for many of its properties.
Functional groups have names - molecules frequently are named according to the functional groups they contain

73. Discussion Notes (cont.)

74. Discussion Notes (cont.)

75. Discussion Notes (cont.)

76. Discussion Notes (cont.)

77. Discussion Notes (cont.)
other functional groups

78. Discussion Notes (cont.)

79. Naming Basic Hydrocarbons
Root
# of C atoms
Meth 1
Eth 2
Prop 3
But 4
Pent 5
Hex 6
Hept 7
Oct 8
Non 9
Dec 10
Hydrocarbons = organic molecules containing only C and H
Alkanes - hydrocarbon w/only single bonds
Name ends in
-ane
Root = # of C atoms
Called saturated hydrocarbons = have max # of H atoms

80. Naming (cont.) Naming with functional groups: hydroxyl = end in –ol
Ester = end in –ate
Carboxyl = end in –ic acid
Ketone = end in –one
Aldehyde = end in –al
Ether = end in –ether
Amine = end in -amine

81. Wrap Up What does the structure of a molecule have to do with smell?
Functional groups are structural features that show up repeatedly in molecules and seem to account for some of their chemical properties.
Molecules containing the same functional groups have similar smells.
The chemical names of molecules are often related to the functional groups they contain. Thus, chemical name is related to smell.

82. Check-in
If a molecule is sweet-smelling, what other things do you know about it? List at least three things that are probably true.

83. Lesson 7: Create a Smell
Ester Synthesis

84. Lesson 7: Create a Smell ChemCatalyst
1. What are some of the starting ingredients you will be using in this lab?
2. Name something you will be doing to the chemicals in this experiment.

85. Key Question
How can a molecule be changed into a different molecule by using chemistry?

86. You will be able to:
successfully complete a laboratory procedure to produce sweet-smelling esters

87. Prepare for the Lab Work in pairs. Everyone must wear safety goggles.
You will be using a hot plate (medium heat) to heat the ingredients. There should be no open flames, because several of the chemicals are flammable.

88. Prepare for the Lab (cont.)
Remember to waft the chemicals when you want to smell them. Some of the chemicals you are using smell very bad.
All uncovered bottles of alcohols and esters should be kept far away from flames, because they are extremely flammable.
Concentrated sulfuric acid will also be used in the reactions. It is very caustic and can burn the skin. Baking soda is available to neutralize any spills.

89. Discussion Notes
In this lab you used chemistry to produce new molecules with new properties.
Synthesis: The creation of specific compounds through controlled chemical reactions.

90. Discussion Notes
The lab procedure you completed resulted in a chemical reaction.
Chemical reaction = chemical change that produces new compounds with new properties
Bonds are broken and atoms rearrange
Changes in structure of molecules are tracked through chemical equations

91. Discussion Notes (cont.)
Reactant: element or compound that is a starting ingredient
written to the left of the arrow
Product: element or compound that is produced
written to the right of the arrow
Catalyst: substance that accelerates a chemical reaction, but is not consumed or altered
catalysts are written above the arrow
When atoms are rearranged during chemical reactions, not all of the bonds must break.

92. Smell of mixture before heating Smell of mixture after heating
Experimental Results
Test tube
Organic acid
Alcohol
Smell of mixture before heating
Smell of mixture after heating 1
Acetic acid
isopentanol
putrid
Fruity, banana smell 2
butanol
strongly putrid
Fruity, pear smell 3
Butyric acid
ethanol
Fruity, pineapple smell

93. Discussion Notes
The products of these reactions smell sweet, so they must all contain an ester functional group.
Many different carboxylic acids and alcohols can be brought together to form an ester and water.

94. Discussion Notes (cont.)
H2SO4
Acetic acid
Carboxylic acid
Butanol
Water
Butyl acetate
Ester

95. Wrap Up
How can a molecule be changed into a different molecule by using chemistry?
Two molecules with their own unique smells can combine to produce a new molecule with a different smell.

96. Lesson 8: Making Scents
Analyzing Ester Synthesis

97. Lesson 8: Making Scents ChemCatalyst
What do you think happened in the experiment in the previous class to transform an acid molecule and an alcohol molecule into a sweet-smelling molecule?

98. Key Question
What happened to the molecules during the creation of a new smell?

99. You will be able to:
explain what happened at a molecular level during the ester synthesis lab
predict the product of a reaction between an alcohol and a carboxylic acid
generally define a chemical reaction
define what a catalyst is

100. Discussion Notes (cont.)
The naming of chemical compounds is not random.
Formic acid reacts with octanol to form octyl formate.

101. Wrap Up
What happened to the molecules during the creation of a new smell?
The smell of the molecules in the ester lab changed because the reactant molecules combined to form different product molecules.
In a chemical reaction, bonds are broken and new bonds are formed.
A catalyst is a substance that accelerates a chemical reaction but is itself not permanently consumed or altered by the reaction.

102. Check-in
Predict the structural formula of the product of this reaction.
What smell would you expect the product to have?
Formic acid
Ethanol