Biology Chapter on Proteins and Enzymes
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Questions and Answers

What term describes the basic building blocks of proteins?

  • Carbohydrates
  • Fatty acids
  • Nucleotides
  • Amino acids (correct)
  • Which property of amino acids contributes to the diversity of proteins?

  • Fixed structure
  • Limited chemical functionality
  • Uniform chirality
  • Polymerization capacity (correct)
  • Which of the following is a primary function of enzymes?

  • Serve as a structural component
  • Store genetic information
  • Act as biological catalysts (correct)
  • Transport oxygen in the blood
  • What role do antibodies play in the immune system?

    <p>Bind to antigens (C)</p> Signup and view all the answers

    What type of proteins are responsible for transporting iron in the body?

    <p>Transport proteins (A)</p> Signup and view all the answers

    In the absence of enzymes, what typically happens to biochemical reactions?

    <p>They can take significantly longer. (D)</p> Signup and view all the answers

    How does the synthesis of transferrin in the body get regulated?

    <p>By the levels of iron (C)</p> Signup and view all the answers

    Which characteristic is NOT related to the intrinsic properties of amino acids?

    <p>Presence of nucleic acids (C)</p> Signup and view all the answers

    What characterizes the primary structure of a protein?

    <p>Amino acid sequence formed by peptide bonds (A)</p> Signup and view all the answers

    Which of the following structures is described as involving hydrogen bonding between amide hydrogens and carbonyl oxygens?

    <p>Secondary structure (C)</p> Signup and view all the answers

    What is the role of adrenocorticotropic hormone (ACTH) in the body?

    <p>Stimulates production of adrenal hormones (D)</p> Signup and view all the answers

    What happens to proteins during denaturation?

    <p>The primary structure remains unchanged (D)</p> Signup and view all the answers

    What is a defining feature of quaternary protein structure?

    <p>Spatial arrangement of multiple polypeptide chains (C)</p> Signup and view all the answers

    How does myoglobin differ from hemoglobin?

    <p>Myoglobin functions to store oxygen, while hemoglobin transports it (D)</p> Signup and view all the answers

    What is necessary to induce protein hydrolysis in a laboratory setting?

    <p>Acid or base, water, and heat (B)</p> Signup and view all the answers

    What is the primary characteristic of secondary structure in proteins?

    <p>It is formed by hydrogen bonding between amide hydrogens and carbonyl oxygens. (D)</p> Signup and view all the answers

    Which of the following statements about the α-helix is incorrect?

    <p>The helix is left-handed. (B)</p> Signup and view all the answers

    What distinguishes the β-pleated sheet from other secondary structures?

    <p>It consists of chains that are nearly completely extended. (C)</p> Signup and view all the answers

    In terms of tertiary structure, what primarily determines a protein's biological function?

    <p>Interactions among side chains or R groups. (C)</p> Signup and view all the answers

    Which type of bond is described as the strongest among those maintaining tertiary structure?

    <p>Disulfide bridges (C)</p> Signup and view all the answers

    What is characteristic of a fibrous protein's secondary structure?

    <p>It consists of fibers or sheets with one type of secondary structure. (A)</p> Signup and view all the answers

    How do salt bridges contribute to protein structure?

    <p>They are ionic interactions between positively and negatively charged side chains. (C)</p> Signup and view all the answers

    Which of the following best describes a characteristic of the β-pleated sheet structure?

    <p>All carbonyl O and amide H are involved in hydrogen bonding. (B)</p> Signup and view all the answers

    What primarily causes the folding of the primary sequence of a polypeptide into a secondary structure?

    <p>Hydrogen bonding between amide and carbonyl groups. (A)</p> Signup and view all the answers

    What role does transferrin play in iron transport within the body?

    <p>It binds and transports iron safely in the bloodstream. (D)</p> Signup and view all the answers

    How does the release of iron from transferrin occur during transport?

    <p>Following a conformational change induced by decreased pH. (B)</p> Signup and view all the answers

    Which proteins are specifically responsible for the transport and storage of oxygen in higher organisms?

    <p>Hemoglobin and myoglobin (B)</p> Signup and view all the answers

    What is one of the main functions of regulatory proteins in the body?

    <p>Control metabolic and reproductive functions. (B)</p> Signup and view all the answers

    Which statement describes the function of structural proteins?

    <p>They provide mechanical support in multicellular organisms. (B)</p> Signup and view all the answers

    What characterized Recessive Dystrophic Epidermolysis Bullosa (EB)?

    <p>Severe chronic blistering from birth. (A)</p> Signup and view all the answers

    Which proteins are part of the body's regulatory system to maintain homeostasis?

    <p>Insulin and glucagon (D)</p> Signup and view all the answers

    What is the consequence of iron not being bound by specific carriers in the body?

    <p>It interacts dangerously with cellular structures. (A)</p> Signup and view all the answers

    What initiates the transport of iron from transferrin into cells?

    <p>Internalization via receptor-mediated endocytosis. (A)</p> Signup and view all the answers

    Which statement is true regarding keratin?

    <p>It provides structural support in hair and nails. (C)</p> Signup and view all the answers

    At which pH does alanine have a net charge of 0?

    <p>pH 6.02 (D)</p> Signup and view all the answers

    What is the primary function of electrophoresis in the analysis of amino acids?

    <p>To observe migration of amino acids based on their charge (D)</p> Signup and view all the answers

    At a pH of 6.01, what will be the net charge of an amino acid with an isoelectric point of 2.77?

    <p>Net negative charge (A)</p> Signup and view all the answers

    When subjected to electrophoresis at pH 6.01, which amino acid would not move from the center due to having a net charge of 0?

    <p>Alanine (A)</p> Signup and view all the answers

    Which amino acid will migrate towards the positive electrode at pH 1?

    <p>Lysine (D)</p> Signup and view all the answers

    What happens to the amino acid's charge as the pH increases above its pI?

    <p>The amino acid becomes negatively charged (A)</p> Signup and view all the answers

    In electrophoresis, what role does ninhydrin serve?

    <p>To react with amino acids producing colored products (A)</p> Signup and view all the answers

    Which amino acid would show a negative charge at pH 6.01?

    <p>Aspartic Acid (C)</p> Signup and view all the answers

    Which pair correctly describes the pKa values and corresponding charges for glycine?

    <p>pKa 2.34: +1; pKa 9.60: 0 (C)</p> Signup and view all the answers

    At what point will an amino acid display a net zero charge?

    <p>At its pI (A)</p> Signup and view all the answers

    Flashcards

    What are proteins?

    Proteins are essential for life and are made up of amino acids. They are crucial for a wide variety of functions in the body.

    What does the name 'protein' mean?

    The name 'protein' comes from the Greek word 'proteios' meaning 'first', reflecting their central role in living organisms.

    How many amino acids make up proteins?

    There are 20 commonly occurring amino acids that form the building blocks of proteins. The diversity of proteins arises from the unique properties of these amino acids.

    What are enzymes?

    Enzymes are biological catalysts that speed up chemical reactions in the body. Most enzymes are proteins.

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    What are examples of digestive enzymes?

    Pepsin, trypsin, and chymotrypsin are examples of digestive enzymes that break down proteins in our food. These enzymes allow our bodies to absorb nutrients.

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    What are antibodies?

    Antibodies are specialized protein molecules produced by the immune system that bind to foreign antigens, like bacteria and viruses, to help eliminate them from the body.

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    What is transferrin?

    Transferrin is a protein that carries iron from the liver to the bone marrow, where it is used to produce hemoglobin for red blood cells.

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    Why is transferrin important for iron transport?

    Iron alone is very reactive and can damage cells. Transferrin safely carries iron through the body.

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    What protein carries iron in the blood?

    Iron, a crucial element for life, is bound to the protein transferrin in the bloodstream for safe transport.

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    How does transferrin enter cells?

    Transferrin, after binding to its receptor on cell surfaces, is internalized into cells via receptor-mediated endocytosis.

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    What causes iron to be released from transferrin?

    The release of iron from transferrin within cells is triggered by a decrease in pH within the endocytic vesicle.

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    What is the function of transport proteins?

    Transport proteins facilitate the movement of various substances throughout the body. Examples include hemoglobin, which carries oxygen in red blood cells, and myoglobin, which stores oxygen in muscles.

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    What do regulatory proteins do?

    Regulatory proteins play vital roles in controlling cellular processes like metabolism and reproduction, ensuring proper function within a specific range of conditions.

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    What type of molecules are many hormones?

    Many hormones that regulate bodily functions, such as insulin and glucagon, are proteins.

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    What is the function of structural proteins?

    Structural proteins provide mechanical support to large organisms, giving them their shape and form. Examples include keratin in hair and fingernails, and proteins that strengthen bones, tendons, and skin.

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    What causes Epidermolysis bullosa (EB)?

    Epidermolysis bullosa (EB) is a group of genetic disorders that affect the skin due to mutations in structural proteins.

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    What is the most severe form of Epidermolysis bullosa ?

    Recessive dystrophic EB, the most severe form of EB, causes extensive blistering on the skin due to defects in structural proteins.

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    What is the main factor causing severe blistering in Epidermolysis bullosa?

    Defective structural proteins in the skin are the underlying cause of the severe skin blistering in individuals with Epidermolysis bullosa.

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    What is the isoelectric point (pI)?

    The isoelectric point (pI) is the pH at which an amino acid exists as a zwitterion with a net charge of zero.

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    What happens to an amino acid at a pH below its pI?

    At pH values below the pI, an amino acid will have a net positive charge because the carboxyl group is protonated (COOH) and the amino group is also protonated (NH3+).

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    What happens to an amino acid at a pH above its pI?

    At pH values above the pI, an amino acid will have a net negative charge because the carboxyl group is deprotonated (COO-) and the amino group is also deprotonated (NH2).

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    What do the pKa values of an amino acid represent?

    The pKa values for an amino acid correspond to the pH values at which the amino acid exists in a 50:50 ratio of protonated and deprotonated forms for each ionizable group.

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    How to calculate the pI for an amino acid with an acidic side chain?

    The pI of an amino acid with an acidic side chain is calculated as the average of the pKa values for the carboxyl group and the acidic side chain.

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    How to calculate the pI for an amino acid with a basic side chain?

    The pI of an amino acid with a basic side chain is calculated as the average of the pKa values for the amino group and the basic side chain.

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    What is electrophoresis?

    Electrophoresis is a technique used to separate molecules based on their charge and size using an electric field.

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    What happens to amino acids with a positive charge in electrophoresis?

    In electrophoresis, amino acids with a net positive charge will migrate towards the negative electrode (cathode) when an electric field is applied.

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    What happens to amino acids with a negative charge in electrophoresis?

    In electrophoresis, amino acids with a net negative charge will migrate towards the positive electrode (anode) when an electric field is applied.

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    How are amino acids separated using electrophoresis?

    Amino acids can be separated using electrophoresis by allowing them to migrate in an electric field at a specific pH. This method allows us to identify and distinguish different amino acids based on their charge.

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    Primary structure

    The linear sequence of amino acids in a polypeptide chain, determined by the genetic code.

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    Secondary structure

    The three-dimensional arrangement of a polypeptide chain, formed by hydrogen bonds between the backbone amide and carbonyl groups.

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    Tertiary structure

    The overall three-dimensional shape of a protein, determined by interactions between amino acid side chains.

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    Quaternary structure

    The arrangement of multiple polypeptide chains in a protein complex.

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    Denaturation

    The loss of organized structure in a protein, leading to a change in its function but not its primary sequence.

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    Protein hydrolysis

    The breaking of peptide bonds in a protein, resulting in smaller peptides or free amino acids.

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    Hemoglobin

    A molecule that binds to and transports oxygen in the blood.

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    α-Helix

    The most common type of secondary structure in proteins, characterized by a coiled, helical shape.

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    β-pleated Sheet

    A form of protein secondary structure where polypeptide chains are arranged in a pleated sheet-like structure, stabilized by hydrogen bonds.

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    α-Helices in Fibrils

    A repeated coiling of α-helices, often found in fibrous proteins, leading to a long, extended fiber-like structure.

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    Disulfide Bridges

    A covalent bond formed between two sulfur atoms of cysteine residues, playing a key role in stabilizing the tertiary structure of proteins.

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    Salt Bridges

    Electrostatic interactions between positively and negatively charged amino acid side chains, contributing to the tertiary structure of proteins.

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    Random or Nonregular Secondary Structure

    A secondary structure that is not easily defined or regular, occurring in regions of a polypeptide chain that lack a clear α-helix or β-pleated sheet conformation.

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    Fibrous Proteins

    Proteins that are primarily composed of long, extended fibers or sheets, usually containing only one type of secondary structure. They typically have a structural role rather than a catalytic function.

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    Study Notes

    Chapter 3: Protein Structure and Function

    • This chapter examines protein structure and function, including amino acids, primary structures, secondary, tertiary, and quaternary structures, and factors influencing enzyme activity.

    3.1 Proteins and Amino Acids

    • Proteins originate from the Greek word "proteios," signifying "first," highlighting their crucial roles in living organisms.
    • Proteins function as essential biological agents, with amino acids serving as their building blocks.
    • The remarkable diversity of proteins in nature arises from the intrinsic properties of only 20 common amino acids.
    • These properties include the capacity to polymerize, diverse acid-base properties, varied structures and chemical functionalities in side chains, and chirality (handedness in molecules). A chiral molecule cannot be superimposed on its mirror image.

    3.2 Proteins: Primary Structure

    • The primary structure of a protein is defined by its linear sequence of amino acids.
    • Peptide bonds link adjacent amino acids, forming a polypeptide chain.

    3.3 Proteins: Secondary, Tertiary, and Quaternary Structures

    • Secondary structure refers to the repeating, regular patterns formed by the polypeptide chain. Common examples of these patterns include alpha-helices and beta-pleated sheets. Hydrogen bonds between the amide hydrogens (N-H) and carbonyl oxygens (C=O) stabilize these structures.
    • Tertiary structure describes the three-dimensional arrangement of a polypeptide chain, resulting from interactions like hydrophobic interactions, hydrogen bonding, salt bridges (ionic interactions), and disulfide bridges.
    • Quaternary structure exists in proteins composed of more than one polypeptide chain. This structure describes how multiple polypeptide subunits or peptides (subunits) arrange to form a functional protein.

    3.4 Enzymes

    • Enzymes are proteins that act as biological catalysts.
    • Enzymes speed up biochemical reactions that would otherwise take days or weeks to occur, or require extremely high temperatures.
    • The digestive enzymes pepsin, trypsin, and chymotrypsin, for example, break down dietary proteins into smaller, absorbable subunits.
    • Without enzymes, the body cannot effectively absorb nutrients.
    • Antibodies are proteins that play a crucial role in the body's immune response to fight off foreign invaders like bacteria and viruses.

    3.5 Factors Affecting Enzyme Activity

    • Several factors can influence enzyme activity including temperature, pH value, and the presence of inhibitors or activators.
    • Various factors can influence protein structure and function, influencing their activity.

    Classification of Some Proteins and Their Functions

    • Structural Proteins: Provide structural components, e.g., collagen, keratin,
    • Contractile Proteins: Enable muscle movement, e.g., myosin and actin;
    • Transport Proteins: Transport essential substances, e.g., hemoglobin, lipoproteins;
    • Storage Proteins: Store nutrients, e.g., casein, ferritin;
    • Hormonal Proteins: Regulate body metabolism, e.g., insulin, growth hormone;
    • Enzymes: Catalyze biochemical reactions, e.g., sucrase, trypsin;
    • Protective Proteins: Recognize and destroy foreign substances, e.g., immunoglobulins.

    Amino Acids: A Deeper Dive

    • Amino acids have particular side chains (R-groups) that distinguish them and influence their properties including their polarity.
      • Nonpolar: Hydrophobic;
      • Polar neutral: Hydrophilic;
      • Polar acidic: Hydrophilic and negatively charged;
      • Polar basic: Hydrophilic and positively charged.
    • All amino acids are vital for normal tissue growth and development.
    • Essential Amino Acids: must be acquired through diet. They include:- PVT. TIM HALL – Phe, Val, Thr, Trp, Ile, Met, His, Arg, Leu, Lys
    • Non-essential amino acids can be produced by the body.
    • Chirality refers to a property of amino acids and their molecules where a molecule cannot be superimposed onto its mirror image.

    Protein Functions (Detailed)

    • Movement Proteins: Essential to maintain movement, e.g., muscles, actin, and myosin.
    • Regulatory Proteins: Control diverse functions including cell metabolism and reproduction, like hormones such as insulin and glucagon.
    • Transport Proteins: Carry substances throughout the body like oxygen and iron. Hemoglobin, transferrin are examples of these.
    • Nutrient Storage Proteins: Supply amino acids for developing embryos and infants, e.g. egg albumin, casein.

    Important Peptides and Protein Hormones

    • Various peptides and protein hormones are produced from different tissues in the body for various physiological functions.

    Myoglobin and Hemoglobin

    • Myoglobin is an oxygen-storage protein, especially within muscle tissue.
    • Hemoglobin transports oxygen throughout the body in the blood.
    • Myoglobin has a higher affinity for oxygen than hemoglobin, allowing it to facilitate efficient oxygen transfer and uptake.
    • Each hemoglobin contains a heme group that can hold one oxygen molecule. The iron in the heme group binds oxygen.

    Protein Denaturation

    • Denaturation disrupts the secondary, tertiary, and quaternary structures of proteins, causing them to lose their biological functions.
    • Physical and chemical factors like high temperature, pH extremes, and heavy metal ions cause denaturation.

    Protein Hydrolysis

    • Hydrolysis is the process of splitting peptide chains into simpler compounds.
    • In a laboratory setting, protein hydrolysis uses acidic or basic solutions and heat to catalyze peptide bond breakage.
    • In the human body, enzymes like peptidases catalyze protein hydrolysis for digestion purposes

    Protein Sequencing

    • Determining amino acid sequences involves hydrolysis, identifying the products, and assembling the sequences like a puzzle.
    • Methods of hydrolysis include acid hydrolysis, and enzymatic hydrolysis using proteases/ peptidases (exo/endopeptidases), including trypsin, chymotrypsin, and others.
    • Additional techniques, like chemical methods (Sanger's method, Edman degradation, hydrazine method) are used for determining the specific amino acid sequence.

    Electrophoresis

    • Electrophoresis is a method used to separate proteins and other charged molecules based on the difference in their net charge under the influence of an electric field.

    Quaternary Structure

    • Quaternary structure refers to how multiple polypeptide chains (subunits) arrange to form larger, functional protein molecules.
    • This arrangement is stabilized by various forces similar to those holding tertiary structures together.

    Conjugated Proteins

    • Conjugated proteins are proteins with additional chemical components or prosthetic groups . These groups (e.g. carbohydrates, lipids, metals) attached help modify the proteins' structure and function.

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