Chapter 4
Enzymes and Energy
Chapter Scope
In the last chapter we learned about the amino acid composition and the structure of proteins. We also studied the process by which proteins are synthesized from information coded in the genes of the chromosomes.   Perhaps the most important group of body proteins is that of enzymes — the subject of this chapter. These vital molecules act as biological catalysts, speeding up chemical reactions in such diverse regions of the body as in the stomach or in the intestine where powerful enzymes digest foods by hydrolysis (chapter 17), in the blood and kidney where the enzyme carbonic anhydrase helps maintain acid‑base balance (chapter 15), and within target cells where various enzymes activate second messenger systems in response to visiting hormones (chapter 11). Enzymes also serve as critical facilitators of cell respiration and other important metabolic pathways that take place in the cytoplasm and within the mitochondria of all cells to combust fuel molecules and provide energy for the cell's many activities (chapters 5, 18).
In the next chapter on cell metabolism, the enzymes introduced here will be appreciated as a specific enzyme catalyzes each step in the breakdown of fuel food molecules and the transfer of energy to adenosine triphosphate (ATP). Since enzymes are protein molecules assembled under the direction of the cell’s DNA, a single defective gene will result in the synthesis of a defective enzyme. Such defective enzymes can cause inborn errors of metabolism, which in severe cases may cause nervous system disorders or even death. Furthermore, the delicate tertiary structure of enzymes must be maintained so that the active site can receive substrate molecules during normal catalysis. Changes in acid‑base balance (such as acidosis or alkalosis) or variations in body temperature (such as hyperthermia or hypothermia) can disturb this precise protein architecture and interfere with the ability of enzymes to regulate metabolism.
With a job this vital to life, it is no wonder that enzymes recruit help from other molecules — namely, coenzymes and cofactors. In this chapter, we will be introduced to two important coenzymes, NAD and FAD, both derived from water‑soluble B vitamins. In similar fashion, these coenzymes function as carriers of hydrogen atoms, shuttling these atoms from place to place along metabolic pathways of the cell. In the next chapter on cell respiration, a third coenzyme (coenzyme A) is introduced that will join NAD and FAD in assisting the many metabolic enzymes working to extract and transfer energy from fuel foods to high‑energy ATP molecules.
I. Enzymes as Catalysts
Enzymes are biological catalysts that function to increase the rate of chemical reactions. Most enzymes are proteins, and their catalytic action results from their complex structure. The great diversity of protein structure allows different enzymes to be specialized in their action.

A. Multiple Choice

• A catalyst is a chemical substance that
• a.  increases the rate of a reaction.
• b.  is not itself changed by the reaction.
• c.  does not change the nature of the reaction.
• d.  does not change the final result of the reaction.
• e.  All of these describe a catalyst.
• Catalysts make reactions go faster by
• a.  increasing the energy level of the reactants.
• b.  lowering the activation energy.
• c.  raising the temperature of the reaction.
• d.  reducing the repulsion between ions within the reactants.
• In enzyme‑catalyzed reactions, the reactant molecules are better known as
• a.  active sites.
• b.  substrates.
• c.  enzyme‑substrate complexes.
• d.  products.
• Enzymes that rearrange atoms within their substrate molecules to form products with the same composition but with a different structure, are called
• a.  hydrolases.
• b.  phosphatases.
• c.  synthetases.
• d.  isomerases.
• Different models of the same enzyme (they must have the same active site and catalyze the same reaction) made by different tissues are called
• a.  isomers.
• b.  isomerases.
• c.  isoenzymes.
• d.  isomodels.
• Which of the following statements about enzymes is false?
• a.  Enzymes are biological catalysts.
• b.  Enzymes speed up chemical reactions by raising the activation energy.
• c.  Enzymes work faster at higher temperatures.
• d.  Enzymes are not changed by the reaction they catalyze.

e.  Enzymes often require the presence of minerals or other “helper” molecules.

• Which of the following molecules is the correct substrate molecule for the enzyme carbonic anhydrase? (Hint: see Table 4.2)
• a.  H2O
• b.  starch
• c.  lactic acid
• d.  H2CO3

B. True or False/Edit

• ___    8.      Most proteins are enzymes.
• ___    9.      Without enzymes all chemical reactions simply will not run.
• ___   10.    Energy of activation is the amount of energy required for a reaction to proceed.
• ___   11.    There are enzymes whose names do not have the characteristic “‑ase” ending, or suffix.
• ___   12.    Isoenzymes display the same active site and catalyze the same chemical reaction but will differ in composition and structure elsewhere in the molecules.
• ___   13.    Ribozymes are unique molecules of RNA that function as enzymes in reactions involving the remodeling of other RNA molecules and in the formation of a growing polypeptide during protein synthesis at the ribosome.
• ___   14.    Enzymes known as synthases or synthetases catalyze reactions that involve removing water (dehydration) from smaller molecules to form bonds that result in a larger product molecule.
• ___   15.    The term substrate always refers to the reactant molecule in an enzyme-catalyzed reaction.

II. Control of Enzyme Activity
The rate of an enzyme‑catalyzed reaction depends on numerous factors, including the concentration of the enzyme and the pH and temperature of the solution. Genetic control of enzyme concentration, for example, affects the rate of progress along particular metabolic pathways and thus regulates cellular metabolism.

A. Multiple Choice

• ___   16.   Which of the following does not alter enzyme activity?
• a.  the temperature and pH of the solution
• b.  the concentration of cofactors and coenzymes present
• c.  the concentration of oxygen present
• d.  the concentration of enzyme and substrate molecules present

•  
• ___   17.   Pepsin, an enzyme secreted by the stomach lining, would be expected to have an optimal pH of
• a.  2.
• b.  4.
• c.  7.4.
• d.  9.
• e.  14.
• ___   18.   Which of the following is least likely to act as a cofactor?
• a.  calcium
• b.  magnesium
• c.  copper
• d.  oxygen
• e.  zinc
• ___   19.   In enzyme-catalyzed reactions, cofactors bind directly to the
• a.  enzyme.
• b.  active site.
• c.  substrate.
• d.  Cofactors bind to all of these locations.
• e.  Cofactors bind to none of these locations.
• ___   20.   Coenzymes participate in enzyme‑catalyzed reactions by
• a.  lowering the activation energy required.
• b.  transporting hydrogen atoms and small molecules from one enzyme to another
• c.  binding to the enzyme, causing conformational changes.
• d.  providing the pH and temperature optima for the reactions.
• ___   21.   Which statement about zymogens is false?
• a.  Zymogens are extremely active, hydrolytic enzymes.
• b.  Examples of zymogens include the protein kinase enzymes in cytoplasm.
• c.  Examples of zymogens include the digestive enzymes from the pancreas.
• d.  Zymogens must first be activated by another enzyme or ligand molecule.

e.  Attachment of a phosphate group can inactivate certain zymogens.

• ___   22.   Cyclic AMP (cAMP), is
• a.  an intracellular regulator molecule directing activities within the cell.
• b.  a particular ligand for activating enzymes such as protein kinase.
• c.  a molecule known also as a second messenger.
• d.  often controlled by extracellular regulatory molecules such as hormones and neurotransmitter molecules.

e.  All of these statements are true.

• ___   23.   “Saturation” in an enzyme‑catalyzed reaction means that the ________ are saturated
  with _______.
• a.  products; enzymes
• b.  substrates; products
• c.  enzymes; substrates
• d.  products; substrates
• ___   24.   Allosteric inhibition is a mechanism along metabolic pathways by which
• a.  inhibition of an earlier step at a branch point along that pathway occurs.
• b.  structural changes at the active site occurs to interfere with the enzyme.
• c.  the final product inhibits an earlier enzymatic step (end‑product inhibition).
• d.  All of these statements describe allosteric inhibition.
• ___   25.   Inborn errors of metabolism that cause disease result in a (an) ________ (increase/decrease) in the amount of intermediates formed prior to the defective step, and a (an) ________ (increase/decrease) in the number of final products formed along alternate pathways.
• a.  increase; increase
• b.  increase; decrease
• c.  decrease; increase
• d.  decrease; decrease

• ___   26.   The inborn error of metabolism that all newborn babies are  tested for and that, once detected, can be controlled by a diet low in one specific amino acid, is known as
• a.  albinism.
• b.  phenylketonuria (PKU).
• c.  Gaucher's disease.
• d.  Tay‑Sachs disease.
• e.  lactose intolerance.

B. True or False/Edit

• ___   27.    Higher  temperatures decrease the rate of enzyme activity by altering the tertiary structure of the enzyme.
• ___   28.    The rate of enzyme activity is decreased by concentrations of hydrogen ion (pH), which are either too high or too low.
• ___   29.    Alkaline phosphatase is an enzyme with a pH optimum having a lower number than that of acid phosphatase enzymes.
• ___   30.    Cofactors are organic molecules derived from water‑soluble vitamins such as niacin and riboflavin.
• ___   31.    Powerful digestive enzymes destined to digest food in the intestine must be secreted in an inactive zymogen form by the pancreas to prevent local damage to cells of the pancreas.
• ___   32.    The activation or inactivation of zymogen molecules can be as simple as adding (phosphorylation) or removing (dephosphorylation) of a phosphate group from the molecule.
• ___   33.    Cyclic AMP (cAMP) is an important neurotransmitter molecule released from the axon terminal of neurons.
• ___   34.    Circulating hormones from the blood and neurotransmitters from neurons can regulate the activities of intracellular enzymes, and thereby regulate many aspects of metabolism in those cells.
• ___   35.    Given a certain number of enzymes, increasing the number of substrate molecules will increase the number of products formed.
• ___   36.    Two different enzymes often catalyze reversible reactions, one for each direction in the reaction.
• ___   37.    During metabolism, the product formed by one enzyme can become the substrate for the next enzyme in the pathway.
• ___   38.    During metabolism, one intermediate can serve as a substrate for two different enzymes, thus ultimately forming two different products.
• ___   39.    In end‑product inhibition, the function of the last product formed is inhibited.
• ___   40.    In diseases known as inborn errors of metabolism, the quantity of intermediates formed prior to the defective enzyme step decreases, and the quantity of intermediates and final products formed after the defective step increases.
• ___   41.    Phenylketonuria (PKU) is an inborn error of phenylalanine metabolism due to an inherited defect in the enzyme that catalyzes the formation of melanin from dihydroxyphenylalanine (DOPA).

III. Bioenergetics

• Living organisms require the constant expenditure of energy to maintain their complex structures and processes. Central to life processes are chemical reactions that are coupled, so that the energy released by one reaction is incorporated into the products of another reaction.

A. Multiple Choice

• ___   42.   Which of the following statements about entropy is false?
• a.  It describes the degree of disorganization of a system.
• b.  It is increased as energy is changed to another form.
• c.  As it increases the amount of free energy available to do work is reduced.
• d.  It is defined by the first law of thermodynamics.
• e.  All of these statements regarding entropy are true.
• ___   43.   Which of the following statements about exergonic reactions is false?
• a.  They can release energy in the form of heat.
• b. They convert molecules with less free energy to molecules with more free energy.
• c.  The combustion of glucose to CO2 and H2O is an example.
• d.  They convert molecules with less entropy to molecules with more entropy.
• e.  All of these statements regarding exergonic reactions are true.

•  
• ___   44.   Which of the following statements about oxidation‑reduction reactions is false?
• a.  Reducing agents donate electrons to another atom or molecule.
• b.  Oxidizing agents accept electrons from another atom or molecule.
• c.  An atom or molecule cannot be both an oxidizing and reducing agent.
• d.  Oxidation and reduction are always coupled reactions.
• e.  All of these statements regarding oxidation-reduction reactions are true.
• ___   45.   The final electron acceptor in a chain of oxidation-reduction reactions that provides energy for ATP production in the cell is

a.  oxygen.
b.  proton (H+).
c.  electron (e-).
d.  water.
e.  ATP.

B. True or False/Edit

• ___   46.   The first law of thermodynamics states that entropy can be neither created nor destroyed.
• ___   47.   Only organized or free energy can be used to perform work.
• ___   48.   Photosynthesis is an example of an endergonic reaction.
• ___   49.   A calorie is a unit of free energy.
• ___   50.   Living cells are able to use heat energy to drive most chemical reactions.
• ___   51.   The breakdown of ATP ® ADP + Pi is an exergonic reaction.
• ___   52.   Oxygen is a very strong oxidizing agent and thus, a strong electron acceptor in oxidation‑reduction reactions.
• ___   53.   NAD is a coenzyme derived from vitamin B2.
• ___   54.   A molecule such as NAD or FAD can be an electron acceptor in one reaction and an electron donor in another reaction.

Chapter Review

A. Completion

Assume you have recently consumed a delicious cheeseburger as a source of body fuel. Also, assume that digestion and absorption into the body was successful such that simple sugars (like glucose) from carbohydrates, triglycerides from lipids, and amino acids from proteins are now present in your body cells. Here, the amino acids floating in the cytoplasm are used to make biological catalysts, or
55. ____________, as instructed by DNA. The various metal ions assist enzymes by working as
56. ____________, while the water‑soluble vitamins work primarily as 57. ____________.  Under optimal conditions of 58. ____________and 59. ____________, enzymes can speed up the metabolism of your cheeseburger fuels, releasing 60. ____________from chemical bonds. Therefore, these reactions are
61. ____________ (endergonic/exergonic). The combustion of glucose as fuel in the cell results in the formation of 62. ____________and water; while some of the chemical‑bond energy is transferred to “high‑energy” bonds of 63. ____________or (____________), and the rest of the energy is lost as
64. ____________. The formation of this “universal energy carrier” is 65. ____________ (endergonic/exergonic), providing the cell with a usable form of energy.
In a similar fashion, triglycerides and amino acids can be combusted in the cell, transferring energy to power the cell's many energy‑requiring processes. Complete combustion of these fuels requires that we breathe so that blood can deliver the gas 66. ____________, which is the final electron 67. ____________ (acceptor/donor) in the cell. In the final step of metabolism, this gas is ultimately 68. ____________ (oxidized/reduced) to form 69. ____________.

B. Crossword Puzzle — Enzymes and Energy