Proteins and Amino Acids

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Questions and Answers

Which of the following best describes the role of mRNA in protein synthesis?

  • It carries genetic instructions from DNA to the ribosomes. (correct)
  • It catalyzes the peptide bond formation between amino acids.
  • It forms the structural components of the ribosome.
  • It transfers amino acids to the ribosome for protein assembly.

Lipids, primarily present as triglycerides, directly facilitate the rapid transport of ions across cellular membranes.

False (B)

Describe how the structural properties of phospholipids contribute to the selective permeability of the cell membrane.

Phospholipids form a bilayer (hydrophilic heads face outward, hydrophobic tails face inward.) This arrangement creates a barrier that allows only certain molecules to pass freely, facilitating the regulation of substance movement into and out of the cell.

Enzymes, which are a class of ______, catalyze biochemical reactions within cells, increasing the rate at which these reactions occur without being consumed in the process.

<p>proteins</p> Signup and view all the answers

Match each type of RNA with its primary function in protein synthesis:

<p>mRNA = Carries genetic instructions from DNA to the ribosome tRNA = Transports amino acids to the ribosome for protein assembly rRNA = Forms a crucial part of the structure of the ribosome</p> Signup and view all the answers

If a cell's ability to synthesize proteins is severely compromised, which of the following cellular processes would be most directly affected?

<p>Enzyme production (B)</p> Signup and view all the answers

How do transport proteins facilitate the movement of molecules across cell membranes?

<p>By binding to specific molecules and undergoing conformational changes. (A)</p> Signup and view all the answers

Explain how the dual nature of phospholipids enables them to form and maintain the structure of cell membranes.

<p>Phospholipids have a hydrophilic (polar) head and hydrophobic (nonpolar) tail. In an aqueous solution, they arrange themselves into a bilayer with the hydrophilic heads facing outwards towards the water and hydrophobic tails facing inwards away from the water. This arrangement forms a stable barrier, essential for cell membrane structure and function.</p> Signup and view all the answers

How does an acidic environment affect the charge of amino acids?

<p>Amino acids become protonated and have a positive charge (cation form). (C)</p> Signup and view all the answers

What characterizes the isoelectric point (pI) of an amino acid or protein?

<p>The pH at which it has no net electrical charge. (B)</p> Signup and view all the answers

Enzymes are consumed during the chemical reactions they catalyze.

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

Name the protein that provides strength to connective tissues, tendons, and bones.

<p>collagen</p> Signup and view all the answers

__________ are specialized proteins produced by the immune system to neutralize foreign invaders.

<p>antibodies</p> Signup and view all the answers

Match each type of protein with its primary function:

<p>Enzymes = Catalyze chemical reactions Structural Proteins = Provide support and shape to cells and tissues Defensive Proteins = Protect an organism from harmful agents Signaling Proteins = Transmit signals inside and outside of cells</p> Signup and view all the answers

What is the primary role of receptor proteins?

<p>To receive signals from outside the cell and initiate an intracellular response. (B)</p> Signup and view all the answers

Which type of protein is embedded in the cell's lipid bilayer and involved in transport and signal reception?

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

Ferritin, a storage protein, is primarily involved in storing glucose in the liver.

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

Name the transport protein that carries oxygen in red blood cells.

<p>hemoglobin</p> Signup and view all the answers

__________ are proteins that regulate the expression of specific genes, influencing when and where these genes are activated or repressed.

<p>transcription factors</p> Signup and view all the answers

Match each motor protein with its primary function:

<p>Myosin = Muscle contraction Kinesin = Vesicle transport along microtubules Dynein = Vesicle transport and movement of cilia and flagella</p> Signup and view all the answers

Insulin is an example of which type of protein?

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

Which of the following is a function of gene regulatory proteins?

<p>Controlling the expression of specific genes (A)</p> Signup and view all the answers

Motor proteins facilitate movement by converting mechanical energy into chemical energy.

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

How does the relatively low percentage of DNA in a cell relate to its function and location?

<p>It reflects that DNA, while crucial, is compactly organized within the nucleus or nucleoid. (A)</p> Signup and view all the answers

Proteins are uniform in structure and function across all cell types due to their shared amino acid building blocks.

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

Describe how the unique 'R group' of an amino acid contributes to the overall structure and function of a protein.

<p>The R group determines the chemical properties of the amino acid, influencing its interactions within the protein and ultimately affecting the protein's folding and function.</p> Signup and view all the answers

Enzymes catalyze biochemical reactions by lowering the energy ______ required for the reactions to occur.

<p>barrier</p> Signup and view all the answers

Match the class of protein with its biological role:

<p>Enzymes = Catalyze biochemical reactions Antibodies = Neutralize harmful invaders Structural proteins = Provide strength and elasticity to tissues Transport proteins = Carry substances across membranes or within fluids</p> Signup and view all the answers

Which of the following is a critical function of proteins in the immune system?

<p>Binding to pathogens to neutralize them or mark them for destruction. (B)</p> Signup and view all the answers

Which of the following statements accurately describes the behavior of a carboxylic acid group (-COOH) in an aqueous solution as the pH increases from acidic to basic?

<p>It becomes deprotonated, transitioning to its conjugate base form (-COO-). (D)</p> Signup and view all the answers

An amino acid with a non-ionizable side chain will be most soluble in water at its isoelectric point (pI).

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

The sequence of amino acids in a protein does not impact its three-dimensional structure or function.

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

Explain how the presence of an ionizable side chain on an amino acid affects the shape of its titration curve, compared to an amino acid with a non-ionizable side chain.

<p>Ionizable side chains add an additional buffering region to the titration curve, corresponding to the pKa of the side chain. This is because each pKa has a buffering zone of 2 pH units, which is a zone where the pH does not change much.</p> Signup and view all the answers

Explain how proteins facilitate metabolic control within the body.

<p>Proteins, acting as enzymes, lower the energy barrier for chemical reactions, allowing metabolic processes to occur efficiently and regulate energy production and usage.</p> Signup and view all the answers

The pH at which the molecule carries no electrical charge is called the ______.

<p>isoelectric point</p> Signup and view all the answers

The bond formed between the carboxyl group of one amino acid and the amine group of another is known as a ______ bond.

<p>peptide</p> Signup and view all the answers

What distinguishes the 20 different amino acids from one another?

<p>The variable side chain (R group). (B)</p> Signup and view all the answers

Match the following descriptions to the correct form of amino acid at the given pH:

<p>Low pH = Cation High pH = Anion pH between pKa values of amino and carboxyl groups = Zwitterion</p> Signup and view all the answers

DNA constitutes a larger percentage of cellular mass than proteins.

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

For an amino acid with an ionizable side chain, what is the correct method to calculate the isoelectric point (pI)?

<p>Average the two pKa values that define the acid and base strength of the zwitterion. (A)</p> Signup and view all the answers

Describe the role of active sites in enzyme function and how they relate to amino acid interactions.

<p>Active sites are specialized regions on enzymes formed by specific sequences of amino acids that bind to substrates and facilitate chemical reactions through precise positioning and chemical properties.</p> Signup and view all the answers

Amino acids are effective buffers at pH values far from their pKa values.

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

Explain why an amino acid does not migrate in an electric field at its isoelectric point (pI).

<p>At its isoelectric point, the amino acid has a net charge of zero; therefore, it is not attracted to either the positive or negative pole in an electric field.</p> Signup and view all the answers

The process by which amino acids are linked together to form a long chain is called ______.

<p>polymerization</p> Signup and view all the answers

What is the primary reason fats serve as a long-term energy source compared to carbohydrates?

<p>Fats are stored more efficiently and provide more energy per gram than carbohydrates. (A)</p> Signup and view all the answers

Amino acids with uncharged side chains, such as glycine, have two pKa values because of the presence of the α-______ group and the α-______ group.

<p>carboxyl, amino</p> Signup and view all the answers

Which statement accurately describes the relationship between pKa and the tendency of a group to be protonated?

<p>A higher pKa indicates a greater tendency to be protonated. (C)</p> Signup and view all the answers

What are the four main macromolecules?

<p>Proteins, Carbohydrates, Lipids, Nucleic Acids (DNA) (B)</p> Signup and view all the answers

Which characteristic of amino acid side chains is most directly responsible for the diversity in protein structure and function?

<p>Their unique chemical properties arising from differences in the amino acid sequence. (A)</p> Signup and view all the answers

All proteins within a cell are synthesized using different sets of amino acids, depending on the protein’s specific function.

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

Describe how the amphiprotic nature of amino acids contributes to their biological function.

<p>Amino acids can act as both acids and bases, allowing them to play roles in proton transfer and maintain pH balance in biological systems.</p> Signup and view all the answers

The formation of a disulfide bridge between two ______ residues in a polypeptide chain contributes to protein stability.

<p>cysteine</p> Signup and view all the answers

Match the amino acid with its classification based on its R substituent.

<p>Alanine = Nonpolar, aliphatic Phenylalanine = Aromatic Serine = Polar, uncharged Lysine = Positively charged Aspartic acid = Negatively charged</p> Signup and view all the answers

Given that pH = -log[H3O+], what happens to the pKa value as the acidity constant (Ka) increases?

<p>pKa decreases logarithmically with Ka. (A)</p> Signup and view all the answers

Mutations that alter the amino acid sequence of a protein always lead to a loss of function.

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

Describe the roles proteins play in maintaining cellular homeostasis and responding to environmental changes.

<p>Proteins maintain homeostasis through various functions like enzymatic catalysis, transport, signaling, and structural support. They enable the cell to efficiently respond to environmental changes by altering gene expression through transcription factors and modifying metabolic pathways via enzymes.</p> Signup and view all the answers

In an acidic environment with a pH much lower than its pKa, an amino acid will be predominantly in its ______ form.

<p>protonated</p> Signup and view all the answers

Two proteins, protein A and protein B, have similar molecular weights but very different functions within the cell. What is the most likely reason for their functional divergence?

<p>They have different amino acid sequences that dictate their three-dimensional structures and binding affinities. (D)</p> Signup and view all the answers

The sequence of amino acids in a protein is determined solely by environmental factors present during protein translation.

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

Explain why glycine is unique among the 20 common amino acids.

<p>Glycine is achiral because its side chain is simply a hydrogen atom. All other amino acids are chiral.</p> Signup and view all the answers

Based on the approximate composition of a cell, if a cell has a dry weight of 100g, the weight of the proteins would be approximately ______g.

<p>55</p> Signup and view all the answers

Considering protein folding and function, what is the primary significance of the hydrophobic effect?

<p>It drives the folding of proteins by clustering nonpolar amino acids in the protein's interior. (B)</p> Signup and view all the answers

Match the protein with its primary function in living tissues:

<p>Hemoglobin = Oxygen Transport Lysozyme = Defense against bacteria Antibodies = Immune Defense Motor Proteins = Cellular Movement Storage Proteins = Amino Acid Reserve</p> Signup and view all the answers

Flashcards

Proteins

Substances that perform crucial functions in cells, including enzymes and transporters.

RNA

Nucleic acid involved in protein synthesis, acting as a messenger between DNA and ribosomes.

Role of Enzymes

Proteins that speed up biochemical reactions in the cell.

Structural Proteins

Proteins that provide support, shape, and structure to cells.

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Transport Proteins

Proteins that move substances in and out of cells and blood.

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Lipids

Diverse molecules that form cell membranes and store energy.

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Phospholipid Bilayer

Structure formed by lipids, making up the cell membrane.

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Types of RNA

Includes mRNA, tRNA, and rRNA, each playing distinct roles in protein synthesis.

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Genes

Segments of DNA that code for specific proteins necessary for cell functions.

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Amino Acids

Building blocks of proteins that determine their structure and function.

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Peptide Bonds

Covalent bonds linking amino acids in a protein chain.

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Polypeptides

Long chains of amino acids formed by peptide bonds that fold into proteins.

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Primary Structure

The sequence of amino acids in a protein that determines its identity.

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Tertiary Structure

The 3D folding pattern of a protein due to interactions between amino acids.

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Enzymes

Proteins that catalyze biochemical reactions, making them more efficient.

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Active Sites

Specific regions on enzymes where substrates bind and reactions occur.

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Ionization of Amino Acids

Amino acids can gain or lose protons, affecting their charge and behavior.

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Hydrophobic vs Hydrophilic

Amino acids can be water-fearing or water-loving, affecting protein location.

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Protein Functions

Proteins serve various roles, including enzymes, transporters, and structural components.

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Antibodies

Proteins that neutralize pathogens in the immune system.

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Metabolism

The chemical processes that manage energy production and usage in the body.

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Protein Structure

The sequence of amino acids determines a protein's final shape or conformation.

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Cell Composition

Proteins make up approximately 55% of cell dry weight.

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Hemoglobin

A major protein in red blood cells that carries oxygen.

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Amphiprotic Nature

Amino acids can both donate and accept protons.

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Disulfide Bonds

Cysteine side chains can form covalent bonds, stabilizing protein structure.

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R Groups of Amino Acids

Variable side chains that distinguish different amino acids.

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pH Concept

pH measures acidity based on the concentration of H3O+ ions.

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Protein Classification

Amino acids can be classified by their side chains: nonpolar, polar, charged.

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Functions of Amino Acids

Amino acids possess properties suitable for biological functions: polymerization and acid-base character.

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Amino Acids in Proteins

All proteins are constructed from the same set of 20 amino acids.

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Isoelectric Point (pI)

pH at which an amino acid or protein has no net charge.

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Function of Enzymes

Proteins that catalyze chemical reactions without being consumed.

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Example of Enzyme

Amylase breaks down starch into sugars during digestion.

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Example of Structural Protein

Collagen gives strength to tendons, bones, and connective tissues.

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Defensive Proteins

Proteins that protect against pathogens and harmful factors.

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Example of Defensive Protein

Antibodies target and neutralize foreign invaders like bacteria.

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Signaling Proteins

Proteins that transmit signals to coordinate biological processes.

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Example of Signaling Protein

Insulin regulates glucose metabolism in the body.

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Receptor Proteins

Proteins that receive signals from outside the cell, initiating internal responses.

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Example of Receptor Protein

G-protein-coupled receptors bind to hormones, triggering cellular events.

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Membrane Proteins

Proteins embedded in the cell membrane, facilitating various functions.

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Example of Membrane Protein

Ion channels like sodium-potassium pumps regulate ion flow across membranes.

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Carboxylic Acid Ionization

The process where −COOH loses a proton to become COO− at low pH.

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Amino Group Protonation

The process where −NH4+ gains a proton at low pH, releasing H+ at high pH.

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Cation-Zwitterion-Anion

The forms of amino acids at varying pH; cation at low, zwitterion in mid, anion at high.

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Zwitterion

A form of an amino acid bearing both positive and negative charges.

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Buffer Function of Amino Acids

Amino acids resist pH changes near their pKa values.

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pKa Values of Glycine

Glycine has a carboxyl pKa of 2.34 and an amino pKa of 9.6.

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Ionizable Side Chains

Side chains that affect the pI and can also be titrated.

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Calculating pI

Average the pKa values of the zwitterion's acid and base forms to find pI.

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Role of Amino Acids in Proteins

Amino acids are the building blocks that form proteins.

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Study Notes

Substances Found in Living Tissues

  • Living cells are composed of proteins, RNA, lipids, and DNA, crucial for structure, energy, communication, and growth.
  • Proteins (~55% dry weight) are the "workhorses" of cells, playing roles as enzymes (catalyzing reactions), structural components, and transporters. Examples include hemoglobin (transport) and actin/collagen (structure).
  • RNA (~20%) is involved in protein synthesis, acting as an intermediary between DNA's genetic blueprint and the proteins produced. mRNA carries instructions, tRNA carries amino acids, and rRNA forms ribosomes.
  • Lipids (~10%) form cellular membranes, store energy (e.g., triglycerides), insulate, and act as signaling molecules (like hormones). Forms include phospholipid bilayers.
  • DNA (~3%) holds the genetic instructions for cell function and replication. It's the blueprint for all life processes.

Why Learn About Proteins?

  • Proteins are diverse, serving vital roles in virtually all cellular functions.
  • Understanding protein function is key to comprehending cellular machinery and disease mechanisms.
  • Proteins have specific functions, with examples like hemoglobin (oxygen transport), and collagen (structural support).
  • Proteins are crucial for biological reactions and interactions, an example is in the immune system where antibodies neutralize pathogens.
  • Enzymes (like amylase) manage metabolism through speeding up chemical processes.

What Are Proteins?

  • Proteins are polymers of amino acids linked via peptide bonds.
  • Amino acids have a central carbon bonded to a carboxyl group, amine group, hydrogen, and a variable side chain.
  • The sequence of amino acids determines a protein's primary structure, influencing its final 3D shape and function.

Common Features of All Proteins

  • All proteins are built from the same 20 amino acids.
  • Amino acid side chains (R groups) affect protein properties and interactions.
  • Protein shape (conformation) is crucial for function, determined by the amino acid sequence.

Ionization of Amino Acids

  • Amino acids can gain or lose protons based on surrounding pH.
  • In acidic conditions, proteins have a positive charge; in basic conditions, a negative charge.
  • The isoelectric point (pI) is the pH where a protein has no net electrical charge, minimal solubility, and no migration in an electric field.

Key Takeaways: Protein Functions

  • Enzymes: Catalyze reactions, like amylase breaking down starch.
  • Structural Proteins: Provide support, like collagen.
  • Defensive Proteins: Protect against pathogens, like antibodies.
  • Signaling Proteins: Transmit signals, like insulin.
  • Receptor Proteins: Receive signals, like GPCRs.
  • Membrane Proteins: Embedded in cell membranes, often for transport, like ion channels.
  • Storage Proteins: Store molecules, like ferritin (iron).
  • Transport Proteins: Carry molecules across membranes or in fluids, like hemoglobin.
  • Gene Regulatory Proteins: Control gene expression, like transcription factors.
  • Motor Proteins: Generate movement, like myosin in muscle contraction.
  • Protein diversity is linked to the variety of amino acid sequences, influencing shape and function.
  • Proteins interact with other molecules within the cell, maintaining homeostasis and enabling cellular processes.
  • Protein functions allow cells to work together, ensuring survival and efficiency.

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