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1Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Chapter 02
Lecture and
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2
2.1 Basic Chemistry
• Matter is anything that takes up space and
has mass.
– The three states of matter are solid, liquid, and gas.
• All matter, living or nonliving, is made up of elements.
– Elements are substances that cannot be broken down into simpler substances by ordinary
chemical means.
3
• 92 naturally-occurring elements serve as building blocks of all matter.
• Other elements have been “human-made” and are not biologically important.
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
organisms
Fe Ca K S P Si Al Mg Na O N C H
Element
60
40
20
0
Pe
rce
nt b
y W
eig
ht
Earth’s crust
© Tom Mareschal/Alamy RF
2
4
Elements That Make up 95%
of Organisms (by weight)
– C Carbon
– H Hydrogen
– N Nitrogen
– O Oxygen
– P Phosphorus
– S Sulfur
5
Atomic Structure
• An atom is the smallest part of an element
that displays the properties of the element.
• Atoms are made up of subatomic particles.
– Protons-positively charged, found in nucleus
– Neutrons-uncharged, found in nucleus
– Electrons-negatively charged, move around nucleus
6
Helium (He)
Subatomic Particles
= proton
= neutron
= electron
b.a.
Particle
Proton
Neutron
Electron
Nucleus
Nucleus
Electron orbital
+1
0
–1
1
1
~0
Atomic Mass Location
c.
Electric
Charge
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.2
3
7
Atomic Mass = Number of Protons +
Number of Neutrons
Atomic Number = The Number of Protons
in the Nucleus
C6
mass number
atomic number
atomic symbol12
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
8
The Periodic Table
• Even though each element consists of a
different atom, certain chemical and physical properties recur (periodicity).
• The periodic table is used to group the elements according to these characteristics.
• The vertical columns are groups.
• The horizontal rows are periods.
9
The Periodic TableCopyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Groups
I
1
1.008
H
2
4.003
He
II III IV V VI VII
3
6.941
Li
4
9.012
Be
5
10.81
B
6
12.01
C
7
14.01
N
8
16.00
O
9
19.00
F
10
20.18
Ne
22.99
Na
12
24.31
Mg
13
26.98
Al
14
28.09
Si
15
30.97
P
16
32.07
S
17
35.45
Cl
18
39.95
Ar
19
39.10
K
20
40.08
Ca
31
69.72
Ga
32
72.59
Ge
33
74.92
As
34
78.96
Se
35
79.90
Br
36
83.60
Kr
VIII
Periods
11
4
10
Isotopes
• Isotopes are atoms of the same element
with different numbers of neutrons.
• Radioactive isotopes emit various types of
energy as they decay.
C C C*12 13 14
6 6 6
*radioactive
11
• Uses of low level radiation
• a. The missing area in this thyroid scan indicates the presence of a tumor that does not take up the
radioactive iodine.
• b. A PET (positron emission tomography) scan reveals which portions of the brain are most
active (yellow and red colors).
12
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
larynx
thyroid gland
trachea
b.
a.
a: © Biomed Commun./Custom Medical Stock Photo; b(left): © Mazzlota et al./Photo Researchers, Inc; b(right): © Hank Morgan/Rainbow
5
13
• Uses of high levels of radiation
– Radiation kills bacteria and fungi. Irradiated peaches spoil less quickly and can be kept for
a longer length of time.
– Physicians use radiation therapy to kill cancer cells.
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
a. b.© Mark Kostich/Getty RF
14
Electrons
• In an electrically neutral atom, the positive charges of protons in the nucleus are balanced by negative charges of electrons.
• Electrons move around the nucleus in orbitals.
• Electrons move in energy levels (electron orbitals).
– First contains two electrons.
– Every one after that can hold eight electrons.
• Octet rule
15
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
electron
electron orbital
nucleusH
C
carbon12C
6
hydrogen1H1
Figure 2.6
6
16
N
7
nitrogen14N
O
Oxygen16O8
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.6
17
P S
Sulfur32S16
Phosphorus31P15
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.6
18
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
electron
electron orbital
nucleusH
C
O
N
P S
7
nitrogen14N
carbon12C
6
Sulfur32S16
Oxygen16O8
Phosphorus31P15
hydrogen1H1
Figure 2.6
7
19
2.2 Molecules and Compounds
• Molecules form when two or more of the same elements bond together (example: O2).
• Compounds form when two or more different elements bond together (H2O).
• When a chemical reaction occurs, energy may be given off or absorbed because of the energy present in bonds.
20
Ionic Bonding
• Ions form when electrons are transferred
from one atom to another.
• For example:
– Na, with one electron in its 3rd orbital, tends to be an electron donor.
• Becomes positive after giving up one electron
– Cl, with seven electrons in its 3rd orbital, tends to be an electron acceptor.
• Becomes negative after gaining one electron
21
Ionic Bonding
• After the transfer of electrons between Na
and Cl:
– Both the Na and Cl ions have eight electrons in their outer orbitals.
– Ions now have opposite electrical charges.
• Ionic compounds are held together by an attraction between oppositely charged ions
called an ionic bond.
8
22
• Each atom now has 8 electrons in its
outermost orbital
• Electron transfer creates charge imbalance
• Charge imbalance
creates ionic bond
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sodiumion (Na+)
sodium chloride (NaCl)
sodium atom (Na) chlorine atom (Cl)
Na Cl
+
Na
–
Cl
chlorideion (Cl+)
Figure 2.7a
23
b.
Na+ Cl–
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
b (salting food): © PM Images/Getty RF; b (crystals): © Evelyn Jo Johnson
24
Covalent Bonding
• A covalent bond results when atoms share
electrons in such a way that each atom has an octet of electrons in the outer orbital.– An atom may share electrons with one or more atoms
• After sharing electrons, each atom has a
completed outer orbital.
• For example, two hydrogen atoms can share their single electron.
9
25
Covalent Bonding
• A single covalent bond results from sharing
one pair of electrons
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
H H H H
MolecularFormula
StructuralFormula
Electron Model
a. Hydrogen gas
H2
Figure 2.7a
26
Covalent Bonding
• A double covalent bond results from
sharing two pairs of electrons
O OO O
b. Oxygen gas
O2
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.7b
27
Shape of Molecules
• Structural formulas make it seem as if
molecules are one-dimensional.
• Molecules have a three-dimensional shape
that determines their biological function.
• Molecules with two atoms are linear.
• Molecules such as methane, with five atoms, have a tetrahedral shape.
10
28
Shape of MoleculesCopyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
c. Methane
HH
H
H
C
H
C H
H
H CH4
Figure 2.7c
29
Shape of Molecules
Space-filling ModelBall-and-stick Model
H
H
H
H109°
hydrogen
carbon
covalent bond
d. Methane–continued
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.7d
30
Nonpolar and Polar Covalent
Bonds
• If the sharing of electrons between two
atoms is fairly equal, a nonpolar covalent bond results.
• As in water, the sharing of electrons between
oxygen and each hydrogen is unequal, resulting in polar covalent bonds.
• Electronegativity is the attraction of an
atom for electrons in a covalent bond.
11
31
Nonpolar Covalent Bonds
• The sharing
between two
atoms that is
mostly equal
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
c. Methane
HH
H
H
C H C H
H
H2H H H H
H
MolecularFormula
StructuralFormula
Electron Model
a. Hydrogen gas
CH4
Figure 2.7
32
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Space-filling ModelBall-and-stick Model
c. Methane
H
H
H
H109°
HH
H
H
C H C H
H
O OO O O2
H2H H H H
H
Molecular
Formula
Structural
FormulaElectron Model
a. Hydrogengas
b. Oxygen gas
CH4
hydrogen
carbon
covalent bond
d. Methane–continuedFigure 2.7
33
Polar Covalent Bonds
• The sharing between two atoms is unequal,
the covalent bond is described as polar
• Oxygen is more electronegative than hydrogen
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
δδδδ+ δδδδ+
δδδδ–
HH H
Hydrogens are partially positive.
O
Ball-and-stick ModelElectron Model Space-filling Model
H
O
O
H H
Oxygen attracts the shared
electrons and is partially negative.
a. W ater (H2O)
104.5°
12
34
Hydrogen Bonding
• Polarity within a water molecule causes the
hydrogen atoms in one molecule to be attracted to the oxygen atoms in other water
molecules.
• The attraction between partially (-) oxygen
and partially (+) hydrogen results in a
hydrogen bond.
• Bond is weak individually but strong collectively.
35
Hydrogen BondingCopyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
δδδδ+
δδδδ+
δδδδ–
H
HO
b. Hydrogen bonding between water molecules
hydrogenbond
Figure 2.9b
36
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
δδδδ+ δδδδ+
δδδδ–
δδδδ+
δδδδ+
δδδδ–
HH H
Hydrogens are partially positive.
O
Ball-and-stick ModelElectron Model Space-filling Model
H
O
HH
O
O
H H
b. Hydrogen bonding between water molecules
Oxygen attracts the shared
electrons and is partially negative.
hydrogen
bond
a. W ater (H2O)
104.5°
Figure 2.9
13
37
2.3 Chemistry of Water
• The first cell(s) evolved in water.
• Organisms are composed of 70–90% water.
• Water is a polar molecule.
• Water molecules form hydrogen bonds
which cause them to cling to one another.
– Water is liquid at temperatures typical of the Earth’s surface due to hydrogen bonding.
38
Properties of Water
• Water has a high heat capacity
– A calorie is the amount of heat energy needed
to raise the temperature of 1 g of water 1°C.
– The hydrogen bonds that link water molecules help water absorb heat without a great change in
temperature.
– Because the temperature of water rises and falls slowly, organisms are better able to maintain their normal internal temperatures.
39
Properties of Water
• Water has a high heat of vaporization
– Converting 1 g of the hottest water to a gas requires an input of 540 calories of heat energy.
– Gives animals in a hot environment an efficient way to release excess body heat.
– Also helps moderate temperatures along coasts.
14
40
Properties of Water
• Water is a solvent
– Due to its polarity, water facilitates chemical
reactions, both outside and within living systems.
– It dissolves many chemical substances.
– A solution contains dissolved substances, which
are then called solutes.
– Hydrophilic molecules attract water.
– Hydrophobic molecules do not attract water.
41
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
H
H
H H HH H
H H H
H
δδδδ+
δδδδ+
δδδδ+
δδδδ+
H HO
O
O OO O
δδδδ–
δδδδ–
Cl–Na+
42
Properties of Water
• Water molecules are cohesive and adhesive
– Water molecules cling together because of hydrogen bonding (cohesion).
– Water’s positive and negative poles allow it to adhere to polar surfaces (adhesion).
– Water is an excellent transport system, both outside and within living organisms.
• For example, blood transports dissolved and suspended substances throughout the body.
15
43
Properties of Water
• Water has a high surface tension
– The stronger the force between molecules in a liquid, the greater the surface tension.
– This allows some insects to walk on the surface of a pond or lake.
44
Properties of Water
• Frozen water (ice) is less dense than liquid water
– As liquid water cools, the molecules come closer together (densest at 4°C).
– Water expands as it freezes because a crystal lattice forms with hydrogen bonds farther apart.
– Ice floats on liquid water because it is less dense.
– Bodies of water freeze from the top down.
45
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
liquid water
ice lattice
Figure 2.11
16
46
Acids and Bases
• When water ionizes, it releases an equal number of hydrogen ions (H+) and hydroxide
ions (OH-)
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H+ +OH H
water hydrogen
ion
hydroxide
ion
OH–
47
Acids and Bases
• Acidic Solutions (High H+ Concentrations)
– Acids are substances that that release hydrogen ions (H+) when dissociated in water.
• An example:
HCl H+ + Cl-
48
Acids and Bases
• Basic Solutions (Low H+ Concentrations)
– Bases are substances that dissociate in water, release hydroxide ions (OH-) or take up
hydrogen ions (H+)
• An example:
NaOH Na+ + OH-
17
49
Acids and Bases
• The pH scale indicates the acidity or
alkalinity of a solution.
– Scale ranges from 0 – 14.
– A pH below 7 is acidic. [H+] > [OH-]
– A pH above 7 is alkaline. [OH-] > [H+]
– A pH of 7 is neutral. [H+] = [OH-]
50
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
pu
re w
ate
r, tea
rs
51
Acids and Bases
• Buffers and pH
– A buffer is a chemical or combination of
chemicals that keep pH within normal limits.
– Bicarbonate ions (HCO3-) and carbonic acid
(H2CO3) found in human blood buffers the pH to
7.4.
18
52
Buffers and pH
If hydrogen ions (H+) are added to blood, this reaction occurs:
H+ + HCO3
- H2CO
3
If hydroxide ions (OH-) are added to blood, this reaction occurs:
OH- + H2CO
3HCO
3- + H
2O
These reactions prevent any significant change in blood pH.
53
2.4 Organic Molecules
• Organic molecules always include:
– carbon (C) and hydrogen (H)
– Those with only (H) and (C) are called hydrocarbons
H C C C C C C C C H
H
H
H
H
H
H
H
H
H
H
H
H
H
H
H
H
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
54
2.4 Organic Molecules
• The chemistry of carbon accounts for the formation of great variety of organic molecules.
• Carbon atoms contain four valence electrons.
• A carbon atom may share electrons with another carbon atom or other atoms in order to achieve eight electrons.
• Satisfying the octet rule
19
55
2.4 Organic Molecules
• Functional groups are a specific
combination of bonded atoms that always react in the same way.
• The more common functional groups are listed in Table 2.1.
56
57
2.4 Organic Molecules
• Macromolecules contain many molecules
joined together.
– Monomers: Simple organic molecules that exist individually
– Polymers: Large organic molecules form by
combining monomers
20
58
2.4 Organic Molecules
• Polymers in cells and their monomers
Polymer Monomer
carbohydrate (e.g., starch) monosaccharide
protein amino acid
nucleic acid nucleotide
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
59
2.4 Organic Molecules
• Cells use common reactions to join monomers.
– In a dehydration reaction an -OH and -H are removed as a water molecule.
– In a hydrolysis reaction, components of water
are added.
60
monomer monomer
monomer monomer
monomer monomer
OH H
OH H
b.
a.
monomer monomer
dehydrationreaction
hydrolysisreaction
H2O
H2O
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.13
21
61
2.5 Carbohydrates
• Carbohydrates function for quick fuel and
short-term energy storage in organisms.
– Play a structural role in woody plants, bacteria and insects
– On cell surfaces, involved in cell-to-cell recognition
62
Simple Carbohydrates
• Monosaccharides are sugars with 3 - 7
carbon atoms.
• Pentose refers to a 5-carbon sugar
• Hexose refers to a 6-carbon sugarCopyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
OH
OH
H
H
H
H
HO OH
HO
C
C
C
CC
4
5
6
3 2
1
OH
OH
H
H
H
HO OH
HO O
CH2OHCH2OH
C6H12O6Figure 2.14
63
Simple Carbohydrates
• Disaccharides contain two monosaccharides
joined by the dehydration reaction.
– Examples – maltose, sucrose, lactose
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
OH HO
HH
O+ +
O O O O
+ +
CH2OH
glucose C6H12O6 glucose C6H12O6
monosaccharide monosaccharide
CH2OH
dehydration reaction
hydrolysis reaction
CH2OH CH2OH
maltose C12H22O11
disaccharide
H2O
water
water
Figure 2.15
22
64
Polysaccharides
• Polysaccharides such as starch,
glycogen, and cellulose are long polymers that contain many glucose subunits.
65
Starch and Glycogen
• Starch is the storage form of glucose in plants.
– May contain up to 4,000 glucose units
– Fewer side branches than glycogen
• Glycogen is the storage form of glucose in animals.
– Liver stores glucose as glycogen
– In between meals, the liver releases glucose
stored in glycogen
66
O
O O
HHH
H
OH H
OH
O
O
HHH
H
OH
OH
O
O
HHH
H
OH
OH
H H
O
O
HHH
H
OH
OH
H
starchgranule
cell wall
potato cells
nonbranched
branched
CH2OH CH2OH CH2OH CH2OH
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
© Jeremy Burgess/SPL/Photo Researchers, Inc.Figure 2.16
23
67
O
O O
HH
H
H
OH H
OH
O
O
HH
H
H
OH
OH
O
O
HH
H
H
OH
OH
H H
O
O
HH
H
H
OH
OH
H
glycogen
granule
liver cells
CH2OH CH2OH CH2OH CH2OH
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
© Don W. Fawcett/Photo Researchers, Inc.Figure 2.17
68
Cellulose
• Some polysaccharides function as structural components of cells.
• Cellulose is found in the cell walls of plants.
– Accounts for the strong nature of the cell walls
– Has different chemical linkage than starch or glycogen
• Prevents us from digesting foods with cellulose
• Chiton, found in the exoskeleton of crabs, is another structural polysaccharide.
69
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
O
OH
OH HH
H
H
H
H
OHOH
H
H
H
H H H
OH
O
H H H
OH
O
OH
O
O
H
OH H
H OH
O
O O
O
OH
OH HH
H
H
H
H
OHOH
H
H
H
H H H
OH
O
H H H
OH
O
OH
O
O
H
OH H
H OH
O
O O
O
OH
OH HH
H
H
H
H
OHOH
H
H
H
H H H
OH
O
H H H
OH
O
OH
O
O
H
OH H
H OH
O
O O
glucosemolecules
microfibrils
cellulose fibers
CH2OH CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
CH2OH
cellulosefiber
plantcell wall
© Science Source/J.D. Litvay/Visuals UnlimitedFigure 2.18
24
70
2.6 Lipids
• Lipids contain more energy per gram
than other biological molecules.
• Types
– Fats and oils used for energy storage
– Phospholipds from membranes
– Steroids include sex hormones
71
2.6 Lipids
• Lipids are diverse in structure and function.
• Lipids have one common characteristic –they do not dissolve in water (hydrophobic).
72
Fats and Oils
• Fats– Usually of animal origin
– Solid at room temperature
– Store energy, insulate against heat loss, form protective cushion
• Oils– Usually of plant origin
– Liquid at room temperature
25
73
Fats and Oils
• A fat molecule is also known as a triglyceride
or neutral fat.
• A triglyceride consists of
– One glycerol backbone
– Three fatty acids
74
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
+
C OHH
H
C OHH
C
C
OHH
H
H
H
C OH
H
C OH
C OH
H
C
H
C
H
C
H
H
CO
C
H
H
H C
HO
H
C
H
C
H
C
H
H
C
C
C
H
H
H
O
C
H
H H H
C
H
C
H
C
H
H
CO
HOC
H
H
C
H
H
H C
H
H H H
C
H
C
H
C
H
H
C
O
C
H
H
C
H
H
H
C
H
H H H
C
H
C
H
C
H
H
CO
H C
H
H H H
C
H
C
H
C
H
H
H
HO
HO
+ 3 H2O
glycerol 3 fatty acids fat molecule
dehydration reaction
hydrolysis reaction
3 watermolecules
Fats and Oils
Figure 2.19
75
• Emulsification
– Fat droplets disperse in water.
– Emulsifiers contain molecules with a polar
and nonpolar end.
26
76
Saturated, Unsaturated, and
Trans-Fatty Acids
• A fatty acid is a hydrocarbon chain that
ends with the acidic group —COOH.
• Saturated fatty acids have no double
bonds between carbon atoms.
• Unsaturated fatty acids have one or more
double bonds between carbon atoms.
77
Comparison of Saturated,
Unsaturated and Trans-Fats
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
C
H
C
H
C
H
C
H
C
H
C
H
H H
Saturated
(butter)
Unsaturated cis fats
(oils)
Unsaturated trans-fats
(hydrogenated oils)
78
Phospholipids
• Phospholipids are comprised of two fatty acids and a phosphate group
• The phosphate group is polar so the molecules are not electrically neutral.
• The phosphate group forms a polar head (hydrophilic) while the rest of the molecule is a nonpolar (hydrophobic) tail.
27
79
PhsopholipidsCopyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
1CH
2 –O
–O
R–
O–
P–
O–
3CH
2
2CH–
O
O
O O CC
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH
CH
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH
CH
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH2
CH3
CH3
inside cell
outside cell
Fa
tty a
cid
s
a. Plasma membrane of a cell
Nonpolar Tails
Polar Head
glycerol
phosphate
b. Phospholipid structure
• Spontaneously form a bilayer in which the
hydrophilic heads face outward toward watery solutions and the tails
form the hydrophobic interior
Figure 2.21
80
Steroids
• Steroids have a backbone of four fused
carbon rings
– Examples: Cholesterol, Testosterone, Estrogen
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
HO
CH3
OH
O
CH3
CH3
OH
a. Testosterone b. EstrogenFigure 2.22
81
2.7 Proteins• Proteins are polymers composed of amino acid
monomers
• Amino acids
– Amino group (-NH2)
– Acidic group (-COOH)
– R group varies
H N C C
amino acid
OH
H H
R
O
N C C
amino acid
acidic groupamino group
O
H R
H
OH
H
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.24
28
82
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
H
CH3
CC
O
O–
H
CH
CH3
CC
O
O–
H
CH2
SH
CC
O
O–
H
CH2
CC
O
O–
H3N+
H3N+
H3N+
H3C
H3N+
Figure 2.23
83
2.7 Proteins
• Proteins perform many functions
– Structural proteins give support (keratin, collagen)
– Enzymes speed up chemical reactions
– Hormones are chemical messengers
– Actin and myosin move cells and muscles
– Some proteins transport molecules in blood
– Antibodies protect cells
– Channels allow substances to cross membranes
84
Peptides
• Peptides
– A polypeptide is a single chain of amino acids.
– A peptide bond joins two amino acids.
dehydration reactionH2O
water
H
H
R
H N C C N CC
H
H
RO
peptide bond
dipeptide
H N C C
amino acid
OH
H H
R
O
N C C
amino acid
acidic groupamino group
O
H R
H
OH
O
OH
H hydrolysis reaction
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
Figure 2.24
29
85
Levels of Protein Organization
• Proteins have up to 4 levels of structural
organization.
– Primary structure is the linear sequence of the amino acids.
– Secondary structure occurs when the protein
takes on a certain orientation in space
• Two types include
– Alpha helix
– Beta sheet
86
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
αααα (alpha) helix
COO–amino acidpeptide bond
hydrogen bond
C NCH
R
C
CH
R
C N
C
CH
R
C
N
C
CH
R
N
C
CH
R
N
CH
R
N
C
N
CH
R
CH
hydrogen bond
ββββ(beta) pleated sheet
Figure 2.25
87
Levels of Protein Organization
– The tertiary structure is the final three-dimensional shape.
• Maintained by various types of bonding between R groups
• Covalent, ionic, hydrogen bonding, disulfide bonding
– Quaternary structure is found in proteins with
multiple polypeptide chains.
• Separate polypeptide chains are arranged to give this highest structure
30
88
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
αααα (alpha) helix
disulfide bond
ββββ(beta) pleated sheet
Figure 2.25
89
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
αααα (alpha) helix
COO–amino acidpeptide bond
disulfide bond
hydrogen bond
CN
CH
R
C
CH
R
CN
C
CH
R
C
N
C
CH
R
N
C
CH
R
N
CH
R
N
C
N
CH
R
CH
hydrogen bond
ββββ(beta) pleated sheet
Figure 2.25
90
Levels of Protein Organization
• The final shape of a protein is very important
to its function.
• A protein is denatured when it loses
structure and function.
– Occurs when proteins are exposed to extreme
heat or pH
31
91
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92
2.8 Nucleic Acids
• The two types of nucleic acids are
– DNA (deoxyribonucleic acid)
• Stores genetic information in the cell and in the organism
• DNA replicates to transmit its information when a cell divides or organism reproduces
– RNA (ribonucleic acid)
93
Structure of DNA and RNA
• Both DNA and RNA are polymers of
nucleotides
– Every nucleotide is a molecular complex of
• Phosphate
• Pentose sugar (ribose or deoxyribose)
• Nitrogen-containing base
– DNA contains: Adenine (A), Thymine (T), Guanine (G) and Cytosine (C)
– In RNA, uracil (U) replaces thymine
32
94
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
O
4'
5'
3' 2'
1'
–O P O
O
O–
phosphate
nitrogen-containing
base
pentose sugar
Nucleotide structure
C
S
C
Figure 2.26
95
Structure of DNA and RNA
• The nucleotides form a linear molecule called a strand.
• DNA is a double helix of two strands.
• The two strands are held together by hydrogen
bonds.
• Rungs of the ladder are formed by complementary paired bases.
– Adenine (A) always pairs with thymine (T)
– Cytosine (C) always pairs with guanine (G)
96
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
A
A
TT G
G
C S
S
S
P
P
P
P
S
P
S
P
S
S
P
S
P
P
C
A
A
A
T
T
T
G
G C
C
S
S
P
a. b. c.
one nucleotide
a: © Radius Images/Alamy RF
33
97
Structure of DNA and RNA
• RNA is single-stranded.
– Several types are involved in carrying
information from DNA to make proteins.
• ATP (Adenosine Triphosphate)
– ATP is a high-energy molecule.
– ATP undergoes hydrolysis and energy is
released.
– ATP is the energy “currency” of the cell.
98
• Last two phosphate bonds are unstable
and easily broken.
• Hydrolization forms ADP (adenosine
diphosphate).
• ATP can be rebuilt.– Add P to ADP to make ATP
Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display.
+ + energyPPP P P P
H2O
Figure 2.28