1. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Overview: The Energy of Life A cell is a miniature chemical factory Thousands of reactions occur The cell extracts energy (from food/from light) and uses energy to perform work Some organisms even convert energy to light, as in bioluminescence

2. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings

3. 1. Concept 8.1: 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

4. Enzyme 1 AB Reaction 1 Enzyme 2 C Reaction 2 Enzyme 3 D Reaction 3 Product Starting molecule 1. Organization of the Chemistry of Life into Metabolic Pathways A metabolic pathway begins with a specific molecule and ends with a product Each step is catalyzed by a specific enzyme

5. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Catabolic pathways release energy by breaking down complex molecules into simpler compounds Anabolic pathways consume energy to build complex molecules from simpler ones Bioenergetics is the study of how organisms manage their energy resources 2.

6. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Forms of Energy Energy is the capacity to cause change Energy exists in various forms, some of which can perform work

7. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Kinetic energy is energy associated with motion – Heat (thermal energy) is kinetic energy associated with random movement of atoms or molecules Potential energy is energy that matter possesses because of its location or structure – Chemical energy is potential energy available for release in a chemical reaction Energy can be converted from one form to another Animation: Energy Concepts Animation: Energy Concepts 3.

8. LE 8-2 On the platform, the diver has more potential energy. Diving converts potential energy to kinetic energy. Climbing up converts kinetic energy of muscle movement to potential energy. In the water, the diver has less potential energy. 4.

9. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings The Laws of Energy Transformation Thermodynamics is the study of energy transformations A closed system is isolated from its surroundings In an open system, energy and matter can be transferred between the system and its surroundings Organisms are open systems

10. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings The First Law of Thermodynamics According to the first law of thermodynamics, the energy of the universe is constant – Energy can be transferred and transformed – Energy cannot be created or destroyed The first law is also called the principle of conservation of energy

11. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings The Second Law of Thermodynamics During every energy transfer or transformation, some energy is unusable, often lost as heat According to the second law of thermodynamics, every energy transfer or transformation increases the entropy (disorder) of the universe

12. LE 8-3 Chemical energy Heat CO 2 First law of thermodynamicsSecond law of thermodynamics H2OH2O

13. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Living cells unavoidably convert organized forms of energy to heat Spontaneous processes occur without energy input; they can happen quickly or slowly For a process to occur without energy input, it must increase the entropy of the universe

14. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Concept 8.2: The free-energy change of a reaction tells us whether the reaction occurs spontaneously Biologists want to know which reactions occur spontaneously and which require input of energy To do so, they need to determine energy changes that occur in chemical reactions

15. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 5. Free-Energy Change,  G A living system’s free energy is energy that can do work.  G – Change(  ) in free energy (G)

16. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings The change in free energy (∆G) during a process is related to the change in enthalpy, or change in total energy (∆H), and change in entropy (T∆S): ∆G = ∆H - T∆S Only processes with a negative ∆G are spontaneous Spontaneous processes can be harnessed to perform work

17. LE 8-5 Gravitational motionDiffusionChemical reaction

18. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Free Energy and Metabolism The concept of free energy can be applied to the chemistry of life’s processes 6. Exergonic and Endergonic Reactions in Metabolism An exergonic reaction proceeds with a net release of free energy and is spontaneous An endergonic reaction absorbs free energy from its surroundings and is nonspontaneous

19. LE 8-6a Reactants Energy Products Progress of the reaction Amount of energy released (  G < 0) Free energy Exergonic reaction: energy released 7. Cellular respiration: C 6 H 12 O 6 + O 2  6CO 2 + 6H 2 O ∆G = -686 kcal/mol

20. LE 8-6b Reactants Energy Products Progress of the reaction Amount of energy required (  G > 0) Free energy Endergonic reaction: energy required 8. Photosynthesis: ∆G = +686 kcal/mol

21. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Equilibrium and Metabolism Reactions in a closed system eventually reach equilibrium and then do no work Cells are not in equilibrium; they are open systems experiencing a constant flow of materials A catabolic pathway in a cell releases free energy in a series of reactions Closed and open hydroelectric systems can serve as analogies

22. LE 8-7a  G = 0 A closed hydroelectric system  G < 0

23. LE 8-7b An open hydroelectric system  G < 0

24. LE 8-7c A multistep open hydroelectric system  G < 0

25. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 10. Concept 8.3: ATP powers cellular work by coupling exergonic reactions to endergonic reactions A cell does three main kinds of work: – Mechanical: beating cilia, muscle contractions – Transport: pumping across membrane – Chemical: endergonic reactions like building polymers from monomers To do work, cells manage energy resources by energy coupling, the use of an exergonic process to drive an endergonic one

26. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 11. The Structure and Hydrolysis of ATP ATP (adenosine triphosphate) is the cell’s energy shuttle ATP provides energy for cellular functions Phosphate groups Ribose Adenine

27. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings The bonds between the phosphate groups of ATP’s tail can be broken by hydrolysis Energy is released from ATP when the terminal phosphate bond is broken This release of energy comes from the chemical change to a state of lower free energy, not from the phosphate bonds themselves 11.

28. LE 8-9 Adenosine triphosphate (ATP) Energy PP P PP P i Adenosine diphosphate (ADP) Inorganic phosphate H2OH2O + +  G = –7.3 kcal/mol 12.

29. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings In the cell, the energy from the exergonic reaction of ATP hydrolysis can be used to drive an endergonic reaction Overall, the coupled reactions are exergonic 13

30. LE 8-10 Endergonic reaction:  G is positive, reaction is not spontaneous Exergonic reaction:  G is negative, reaction is spontaneous  G = +3.4 kcal/mol  G = –7.3 kcal/mol  G = –3.9 kcal/mol NH 2 NH 3 Glu Glutamic acid Coupled reactions: Overall  G is negative; together, reactions are spontaneous AmmoniaGlutamine ATP H2OH2O ADP P i + + +

31. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 13. How ATP Performs Work ATP drives endergonic reactions by phosphorylation, transferring a phosphate group to some other molecule, such as a reactant The recipient molecule is now phosphorylated The three types of cellular work (mechanical, transport, and chemical) are powered by the hydrolysis of ATP

32. LE 8-11 NH 2 Glu P i P i P i P i NH 3 P P P ATP ADP Motor protein Mechanical work: ATP phosphorylates motor proteins Protein moved Membrane protein Solute Transport work: ATP phosphorylates transport proteins Solute transported Chemical work: ATP phosphorylates key reactants Reactants: Glutamic acid and ammonia Product (glutamine) made + + + 13.

33. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 14. The Regeneration of ATP ATP is a renewable resource that is regenerated by addition of a phosphate group to ADP A working muscle cell recycles its entire pool of ATP in less than a minute. That turnover represents 10 million molecules of ATP consumes and regenerated per second per cell. If ATP could not be regenerated, humans would use up nearly their body weight in ATP each day.

34. LE 8-12 P i ADP Energy for cellular work (endergonic, energy- consuming processes) Energy from catabolism (energonic, energy- yielding processes) ATP + 14.

35. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 15. Concept 8.4: Enzymes speed up metabolic reactions by lowering energy barriers A catalyst is a chemical agent that speeds up a reaction without being consumed by the reaction An enzyme is a catalytic protein Hydrolysis of sucrose by the enzyme sucrase is an example of an enzyme-catalyzed reaction

36. LE 8-13 Sucrose C 12 H 22 O 11 Glucose C 6 H 12 O 6 Fructose C 6 H 12 O 6

37. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 16. The Activation Energy Barrier The initial energy needed to start a chemical reaction is called the free energy of activation, or activation energy (E A ) Activation energy is often supplied in the form of heat from the surroundings

38. LE 8-14 Transition state CD A B EAEA Products CD A B  G < O Progress of the reaction Reactants C D A B Free energy 16.

39. LE 8-15 Course of reaction without enzyme E A without enzyme  G is unaffected by enzyme Progress of the reaction Free energy E A with enzyme is lower Course of reaction with enzyme Reactants Products 16.

40. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings How Enzymes Lower the E A Barrier Enzymes catalyze reactions by lowering the E A barrier Enzymes do not affect the change in free-energy (∆G); instead, they hasten reactions that would occur eventually Animation: How Enzymes Work Animation: How Enzymes Work

41. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 17. Substrate Specificity of Enzymes An enzyme is a catalytic protein The reactant that an enzyme acts on is called the enzyme’s substrate The enzyme binds to its substrate, forming an enzyme-substrate complex The active site is the region on the enzyme where the substrate binds Induced fit of a substrate brings chemical groups of the active site into positions that enhance their ability to catalyze the reaction

42. LE 8-17 Enzyme-substrate complex Substrates Enzyme Products Substrates enter active site; enzyme changes shape so its active site embraces the substrates (induced fit). Substrates held in active site by weak interactions, such as hydrogen bonds and ionic bonds. Active site (and R groups of its amino acids) can lower E A and speed up a reaction by acting as a template for substrate orientation, stressing the substrates and stabilizing the transition state, providing a favorable microenvironment, participating directly in the catalytic reaction. Substrates are converted into products. Products are released. Active site is available for two new substrate molecules. 17.

43. Substrate Active site Enzyme Enzyme-substrate complex 19. Enzymes are proteins that have unique 3-D conformations. The specificity of an enzyme results from its shape, which is a consequence of its amino acid sequence.

44. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 20. Catalysis in the Enzyme ’ s Active Site In an enzymatic reaction, the substrate binds to the active site The active site can lower an E A barrier by – Orienting substrates correctly – Straining substrate bonds – Providing a favorable microenvironment – Covalently bonding to the substrate

45. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 21. Effects of Local Conditions on Enzyme Activity An enzyme’s activity can be affected by: – General environmental factors, such as temperature and pH – Chemicals that specifically influence the enzyme

46. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 22. Effects of Temperature and pH Each enzyme has an optimal temperature and optimal in which it can function Because extremes disrupt the hydrogen bonds, ionic bonds, and other weak interactions that stabilize the active conformation, and the protein molecule eventually denatures. 23. Pepsin a digestive enzyme in the stomach works best in pH 2

47. LE 8-18 Optimal temperature for typical human enzyme Optimal temperature for enzyme of thermophilic (heat-tolerant bacteria) Temperature (°C) Optimal temperature for two enzymes 020 40 6080100 Rate of reaction Optimal pH for pepsin (stomach enzyme) Optimal pH for trypsin (intestinal enzyme) pH Optimal pH for two enzymes 0 Rate of reaction 1 23 45 67 8 910

48. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 24. Cofactors Cofactors are nonprotein enzyme helpers – Ex. Metal atoms zinc, iron and copper in ionic form Coenzymes are organic cofactors – Ex. Vitamins

49. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 25. Enzyme Inhibitors Competitive inhibitors bind to the active site of an enzyme, competing with the substrate Noncompetitive inhibitors bind to another part of an enzyme, causing the enzyme to change shape and making the active site less effective

50. LE 8-19 Substrate Active site Enzyme Competitive inhibitor Normal binding Competitive inhibition Noncompetitive inhibitor Noncompetitive inhibition A substrate can bind normally to the active site of an enzyme. A competitive inhibitor mimics the substrate, competing for the active site. A noncompetitive inhibitor binds to the enzyme away from the active site, altering the conformation of the enzyme so that its active site no longer functions. 25.

51. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Concept 8.5: Regulation of enzyme activity helps control metabolism Chemical chaos would result if a cell’s metabolic pathways were not tightly regulated To regulate metabolic pathways, the cell switches on or off the genes that encode specific enzymes

52. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 26. Allosteric Regulation of Enzymes Allosteric regulation is the term used to describe cases where a protein’s function at one site is affected by binding of a regulatory molecule at another site Allosteric regulation may either inhibit or stimulate an enzyme’s activity

53. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 28. Allosteric Activation and Inhibition Most allosterically regulated enzymes are made from polypeptide subunits Each enzyme has active and inactive forms The binding of an activator stabilizes the active form of the enzyme The binding of an inhibitor stabilizes the inactive form of the enzyme

54. LE 8-20a Allosteric enzyme with four subunits Regulatory site (one of four) Active form Activator Stabilized active form Active site (one of four) Allosteric activator stabilizes active form. Non- functional active site Inactive form Inhibitor Stabilized inactive form Allosteric inhibitor stabilizes inactive form. Oscillation Allosteric activators and inhibitors

55. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Cooperativity is a form of allosteric regulation that can amplify enzyme activity In cooperativity, binding by a substrate to one active site stabilizes favorable conformational changes at all other subunits **Add about hemoglobin 29.

56. LE 8-20b Substrate Binding of one substrate molecule to active site of one subunit locks all subunits in active conformation. Cooperativity another type of allosteric activation Stabilized active form Inactive form

57. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 30. Feedback Inhibition In feedback inhibition, the end product of a metabolic pathway shuts down the pathway Feedback inhibition prevents a cell from wasting chemical resources by synthesizing more product than is needed

58. LE 8-21 Active site available Initial substrate (threonine) Threonine in active site Enzyme 1 (threonine deaminase) Enzyme 2 Intermediate A Isoleucine used up by cell Feedback inhibition Active site of enzyme 1 can’t bind theonine pathway off Isoleucine binds to allosteric site Enzyme 3 Intermediate B Enzyme 4 Intermediate C Enzyme 5 Intermediate D End product (isoleucine) 30.

59. Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings 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 Some enzymes reside in specific organelles, such as enzymes for cellular respiration being located in mitochondria

60. LE 8-22 Mitochondria, sites of cellular respiration 1 µm