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This is a lecture presentation for my BIOL 101 General Biology I students on Chapter 8: An Introduction to Metabolism. (Campbell Biology, 10th Ed. by Reece et al). Rob Swatski, Associate Professor of Biology, Harrisburg Area Community College - York Campus, York, PA. Email: [email protected] Please visit my website for more anatomy and biology learning resources: http://robswatski.virb.com/
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An Introduction
to Metabolism
BIOL 101: General Biology I
Chapter 8
Rob Swatski Associate Professor of Biology
HACC – York Campus 1
Overview: The Energy of Life
• The living cell is a miniature chemical factory where thousands of reactions occur
• The cell extracts energy and applies energy to perform work
• Some organisms even convert energy to light, as in bioluminescence
3
Bioluminescence
5
6
An organism’s metabolism transforms matter and energy, subject to the
laws of thermodynamics
• Metabolism is the totality of an organism’s chemical reactions
• Metabolism is an emergent property of life that arises from interactions between molecules within the cell
8
Chemical Reactions
Metabolism
Physiology
Emergent Properties
Metabolic Pathways 9
10
11 http://www.metabolicvisualizer.org/
Enzyme 1 Enzyme 2 Enzyme 3
B A
Reaction 1 Reaction 3 Reaction 2
Starting Molecule
(Substrate)
Product
B C D
Bioenergetics: study of how organisms manage their energy resources
Metabolic Pathway
12
AB A B
Catabolic Pathways
13 …release energy
Light energy
ECOSYSTEM
Photosynthesis in chloroplasts
CO2 + H2O
Cellular respiration in mitochondria
Organic molecules
+ O2
ATP powers most cellular work
Heat energy
ATP
exergonic
endergonic
14
15
A B AB
16
Anabolic Pathways
…gain energy
Light energy
ECOSYSTEM
Photosynthesis in chloroplasts
CO2 + H2O
Cellular respiration in mitochondria
Organic molecules
+ O2
ATP powers most cellular work
Heat energy
ATP
exergonic
endergonic
17
18
19
Energy
Potential
Chemical
Kinetic & Heat
(thermal energy)
A diver has more potential energy on the platform
than in the water.
Diving converts potential energy to
kinetic energy.
Climbing up converts the kinetic energy of muscle movement
to potential energy.
A diver has less potential energy in the water
than on the platform.
21
Thermodynamics
Closed systems
Open systems
22
23
24
First Law of Thermodynamics
= Principle of Conservation of
Energy
The energy of the universe is constant
Energy can be transferred &
transformed, but…
…it cannot be created or destroyed
First law of thermodynamics
26
Total Energy of Reactants
Total Energy of Products
First Law of Thermodynamics
27
Second Law of Thermodynamics
During every energy transfer or
transformation…
…some energy is unusable & is often lost
as heat
Every energy transfer or transformation increases the entropy (disorder) of
the universe
Heat
Second Law of Thermodynamics
29
Spontaneous Processes
Occur without any energy input
Can be fast or slow
Must always increase the entropy of the
universe
30
31
32
Biological Order & Disorder
Cells create order from disorder
Energy flows into an ecosystem as light…
…and flows out of an ecosystem as heat
Primary producers
Energy flow
Chemical cycling
Primary consumers
Secondary consumers
Tertiary consumers
Microorganisms and other
detritivores
Detritus
Sun
Heat
33
34
Why doesn’t the evolution of more
complex forms of life violate the Second
Law?
35
Effie Sue
36
Entropy may decrease in an individual
organism, but the total entropy of the universe is still
increasing
37
38
Energy and Chemical Reactions
Which reactions are spontaneous?
Which reactions require an input of energy?
How does energy change during a
chemical reaction?
39
Free Energy
Energy in a living cell that can do
work when temperature &
pressure are uniform
Change in free energy (∆G)
- ∆G reactions are spontaneous & can
be harnessed to do work
40
41
∆G = ∆H – T∆S
∆H = the change in enthalpy (total energy)
T = temperature in degrees Kelvin
∆S = the change in entropy
42
Free Energy
Free energy measures a system’s
stability
Unstable systems tend to become
more stable
- ∆G reactions: free energy decreases & stability increases
Moves toward equilibrium
(maximum stability)
Less free energy (lower G) More stable
Less work capacity
More free energy (higher G) Less stable
Greater work capacity
In a spontaneous change: The free energy of the system
decreases (∆G < 0) The system becomes more
stable The released free energy can
be harnessed to do work
43
Spontaneous change
Spontaneous change
Spontaneous change
Diffusion Chemical reaction Gravitational motion
44
45
Energy Energy Exergonic Reaction
Spontaneous: releases free energy
46
Energy Energy Endergonic Reaction
Nonspontaneous: absorbs free energy
Energy
Exergonic reaction
Progress of the reaction
Fre
e e
ne
rgy
Products
Amount of energy
released (∆G < 0)
Reactants
47
Energy
Endergonic reaction
Progress of the reaction
Fre
e e
ne
rgy
Products
Amount of energy
required (∆G > 0)
Reactants
48
49
Closed Systems
Reactions in closed systems
eventually reach
equilibrium and…
…cannot do any more work
Closed hydroelectric system
∆G < 0 ∆G = 0
50
51
Open Systems
Life consists of open systems that do not
reach equilibrium
Materials are constantly flowing in
and out
Metabolism is never at equilibrium
∆G < 0
Open hydroelectric system
52
∆G < 0
∆G < 0
∆G < 0
Open multistep hydroelectric system
53
54
Cellular Work
Chemical
Transport Mechanical
55
Kinesin
56
Endergonic
Exergonic
Energy Coupling
ATP
57
58
ATP: Adenosine
Triphosphate Main energy
molecule of the cell
Ribose (sugar)
Adenine (nitrogenous base)
3 Phosphate groups
Phosphate groups Ribose
Adenine
59
60
ATP Hydrolysis
Breaks the terminal
phosphate bond of ATP
Releases energy to power all
cellular work
ATP is now in a state of lower
free energy
Inorganic phosphate
Energy
Adenosine triphosphate (ATP)
Adenosine diphosphate (ADP)
P P
P P P
P + +
H2O
i
61
62
Phosphorylation
How ATP drives endergonic reactions
Transfers a phosphate group to
another molecule
The recipient molecule is now phosphorylated
P
(b) Coupled with ATP hydrolysis, an exergonic reaction
Ammonia displaces the phosphate group, forming glutamine.
(a) Endergonic reaction
(c) Overall free-energy change
P P
Glu
NH3
NH2
Glu i
Glu ADP +
P
ATP +
+
Glu
ATP phosphorylates glutamic acid, making the amino acid less stable.
Glu NH3
NH2
Glu +
Glutamic acid
Glutamine Ammonia
∆G = +3.4 kcal/mol
+ 2
1
63
Mechanical work: ATP binds non-covalently to motor proteins, then is hydrolyzed
P i
ADP +
P P i
Transport work: ATP phosphorylates transport proteins
ATP
ATP
64
P i ADP + Energy from catabolism (exergonic)
Energy for cellular work
(endergonic) H2O ATP + ATP
ATP = Renewable Resource
Phosphorylation of ADP
65
66
Enzymes
Catalysts: speed up a reaction
Are not consumed by the reaction
Enzyme-catalyzed reaction
67
Increase Reaction Rate
Decrease Activation
Energy
Catalysts
68
Enzymes as Catalysts
69
Sucrose (C12H22O11)
Glucose (C6H12O6) Fructose (C6H12O6)
Sucrase
Sucrose Hydrolysis by Sucrase
70
71
Activation Energy (EA)
Energy needed to start a chemical
reaction
Often supplied by surrounding heat
Activation energy barrier
72
Progress of the reaction
Products
Reactants
∆G < O
Transition state
EA
D C
B A
D
D
C
C
B
B
A
A
73
74
Enzymes and EA
Enzymes lower the EA barrier
Do not affect the change in free
energy (∆G)
Enzymes accelerate reactions that would
eventually occur
Course of reaction without enzyme
EA without enzyme EA with
enzyme is lower
Course of reaction
with enzyme
Reactants
Products
G is unaffected by enzyme
Progress of the reaction
Fre
e e
ne
rgy
76
Enzyme & Substrate Specificity
Substrate = Reactant
Enzyme-substrate complex
Active site
Substrates
Active Site
Enzyme
77
Enzymes = Catalysts
Induced fit
78
How Do Enzymes Lower the EA barrier?
Form multiple bonds with substrates
Properly orient substrate
Provide a favorable microenvironment
Strain substrate bonds
Substrates
Enzyme
Products are released
Products
Substrates converted into
products
Lower EA speeds up reaction
Hydrogen bonds & ionic bonds form between
enzyme & substrates
Substrates enter active site
Active site is open
for new substrates
Enzyme-substrate complex
5
3
2
1
6
4
79
80
Enzyme Activity &
Environmental Factors
Temperature
pH
Cofactors
Rat
e o
f re
acti
on
Optimal temperature for enzyme of thermophilic
(heat-tolerant) bacteria
Optimal temperature for typical human enzyme
Optimal temperature for two enzymes
Optimal pH for two enzymes
Rat
e o
f re
acti
on
Optimal pH for pepsin (stomach enzyme)
Optimal pH for trypsin (intestinal enzyme)
Temperature (ºC)
pH 5 4 3 2 1 0 6 7 8 9 10
0 20 40 80 60 100
Effects of Temperature & pH on Enzyme Activity
81
82
Cofactors
Nonprotein enzyme helpers
Inorganic: metal ions
Organic: coenzymes (vitamins)
83
Enzyme Inhibitors
Competitive Inhibitors
Noncompetitive Inhibitors
Toxins, pesticides, antibiotics
Normal binding Noncompetitive inhibition Competitive inhibition
Noncompetitive inhibitor
Active site
Competitive inhibitor
Substrate
Enzyme
84
85
Allosteric Regulation of
Enzyme Activity
May stimulate or inhibit enzyme
activity
Regulatory protein binds to enzyme at
one site…
…and affects enzyme function at
another site
Activators & inhibitors
Inhibitor
Non- functional active site
Stabilized inactive
form
Inactive form
Oscillation
Activator Active form
Stabilized active form Regulatory
site (1 of 4)
Allosteric enzyme with 4 subunits
Active site (1 of 4)
Allosteric Activators & Inhibitors 86
87
Cooperativity
Another type of allosteric activation
Amplifies enzyme activity
Substrate binds to one active site…
…and stabilizes favorable shape
changes at all other active sites
Substrate
Inactive form
Stabilized active form
Cooperativity
88
89
Identification of Allosteric Regulators
Attractive drug candidates for
enzyme regulation
Example: inhibit proteolytic
enzymes (caspases)
May help manage inappropriate inflammatory
responses
SH
Substrate
Hypothesis: allosteric inhibitor locks enzyme
in inactive form
Active form can bind substrate
S–S SH
SH
Active site
Caspase 1
Known active form
Known inactive form
Allosteric binding site
Allosteric inhibitor
EXPERIMENT
90
Caspase 1
RESULTS
Active form Allosterically inhibited form
Inactive form
Inhibitor
91
92
Feedback Inhibition
End product of enzymatic pathway…
…shuts down the pathway
Prevents a cell from wasting
resources
Active site available
Isoleucine used up by
cell
Feedback inhibition
Active site of enzyme 1 is
no longer able to catalyze the
conversion of threonine to intermediate A;
pathway is switched off. Isoleucine
binds to allosteric
site.
Initial substrate
(threonine)
Threonine in active site
Enzyme 1 (threonine deaminase)
Intermediate A
Intermediate B
Intermediate C
Intermediate D
Enzyme 2
Enzyme 3
Enzyme 4
Enzyme 5
End product (isoleucine)
Tonyjaase Enzyme
Substrate 1
Substrate 2
Active Sites
Tonyjaaase Enzyme
in Action video
94
Specific Localization of Enzymes Within the Cell
• Structures within the cell help bring order to metabolic pathways
• Some enzymes act as structural components of membranes
• In eukaryotic cells, some enzymes reside in specific organelles; for example, enzymes for cellular respiration are located in mitochondria
Mitochondria
The matrix contains enzymes in solution that are involved in one stage
of cellular respiration.
Enzymes for another stage of cellular
respiration are embedded in the inner membrane.
1 m