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b1.2 proteins

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33 Questions

What are the four main components that a central carbon atom is covalently bonded to in a generalised structure of an amino acid?

carboxyl group, amino group, H atom, and unique organic side chain (R group)

What is the byproduct of the condensation reaction that forms a peptide bond between two amino acids?

water

What is the characteristic of the ends of a dipeptide formed through condensation reaction?

N-terminal end has a free amino group, and C-terminal end has an unbound carboxyl group

What is the significance of essential amino acids in the human diet?

They cannot be produced by the body and must be obtained from food for proper growth, maintenance, and repair of tissues and organs.

What is the difference between essential and non-essential amino acids?

Essential amino acids cannot be produced by the body and must be obtained from food, whereas non-essential amino acids can be produced by the body from other amino acids or protein breakdown.

What is the structural implication of the peptide bond formation between amino acids?

One end of the protein must have an amine group, and the other end must have a carboxyl group.

How does the genetic code provide instructions for the synthesis of proteins?

The genetic code provides instructions for the synthesis of proteins through transcription and translation, where DNA is transcribed into mRNA and then translated into the sequence of amino acids that make up proteins.

What is the significance of codons in the genetic code?

Codons are groups of three nucleotides that specify the type of amino acid or stop signal required, and there are 64 different codons in total, but only 20 amino acids, making the genetic code degenerate.

What is the function of lysozyme, an example of a polypeptide?

Lysozyme, a polypeptide composed of 129 amino acids, has antimicrobial properties, disrupting the cell walls of certain bacteria, and is present in tears and saliva.

What is the role of glucagon, another example of a polypeptide?

Glucagon, a polypeptide composed of 29 amino acid residues, regulates blood sugar levels by releasing glucose.

What is the function of myoglobin, a polypeptide found in muscle tissues?

Myoglobin, a polypeptide composed of 153 amino acid residues, is an oxygen binding protein that facilitates the storage and release of oxygen to muscle fibers during strenuous physical activity.

Why are polypeptides necessary for the proper growth, maintenance, and repair of the body's tissues and organs?

Polypeptides are necessary for the proper growth, maintenance, and repair of the body's tissues and organs because they serve as both enzymes and hormones, facilitating various cellular functions.

What determines the properties of the assembled polypeptides in amino acids?

The R group of amino acids determines the properties of the assembled polypeptides.

What type of bonds are responsible for stabilizing the formation of secondary structure in proteins?

Hydrogen bonds between the carboxyl group of one amino acid and the amino group of another amino acid.

What is the primary structure of proteins composed of?

A specific sequence of amino acids that are joined together to form a polypeptide chain.

What is the characteristic of R groups that are hydrophilic?

They are polar or charged, and attract water molecules.

What is the role of hydrogen bonds in maintaining the tertiary structure of proteins?

They stabilize the three-dimensional shape by holding distant regions of the polypeptide chain together.

What type of bonds are formed between oppositely charged ions in proteins?

Ionic bonds.

What is the result of the interaction between hydrophobic amino acids in proteins?

They clump together into hydrophobic clusters to minimize contact with surrounding water molecules.

How do hydrophilic polar amino acids and hydrophobic non-polar amino acids affect the tertiary structure of proteins?

Hydrophilic polar amino acids face the aqueous environment, while hydrophobic non-polar amino acids are protected in the core, minimizing unfavourable interactions with water molecules.

What is the significance of disulphide covalent bonds in proteins?

They help to maintain the protein's 3D shape by forming covalent bonds between pairs of cysteine amino acid residues.

What is the consequence of the interaction between R groups in the tertiary structure of proteins?

The interaction between R groups determines the further folding of the polypeptide, resulting in the tertiary structure.

What is the significance of the hydrophilic exterior of insulin, and how does it allow the protein to interact with its surroundings?

The hydrophilic exterior of insulin allows it to react with water and other hydrophilic molecules in the blood.

What is the structure and function of collagen, and what are its components?

Collagen is a fibrous protein with a triple helix structure, composed of 3 polypeptide chains twisted together, rich in glycine, proline, and hydroxyproline residues, which helps maintain its shape and provides strength and stability.

How does the structure of fibrous proteins differ from that of globular proteins?

Fibrous proteins have a long and narrow shape (elongated), designed for strength and stability, whereas globular proteins have a compact and globular shape.

What is the function of the hydrophobic interior of insulin, and how does it contribute to the protein's overall structure?

The hydrophobic interior of insulin stabilizes the shape of the protein and maintains its globular shape.

What are the specific residues responsible for the twisting of the polypeptide chains in collagen, and what type of bonds hold them together?

The residues responsible for the twisting of the polypeptide chains in collagen are glycine, proline, and hydroxyproline, which are held together by hydrogen bonds and van der Waals forces.

What is the quaternary structure of a protein, and provide an example?

The quaternary structure of a protein is the arrangement and interaction of two or more polypeptide chains to form a functional protein. An example is haemoglobin, which consists of four individual polypeptide chains, two alpha chains and two beta chains.

What is the difference between conjugated and non-conjugated proteins?

Conjugated proteins are proteins that have non-protein components such as metal ions or carbohydrates in addition to polypeptide subunits, whereas non-conjugated proteins consist only of polypeptide subunits.

What is the process involved in the formation of a protein's 3D shape?

The process involved in the formation of a protein's 3D shape is protein folding, which is influenced by factors such as hydrogen bonding, ionic bonding, hydrophobic interaction, and the sequence of amino acids in the protein.

What are the characteristics of globular proteins, and what are their functions?

Globular proteins have a spherical or irregular shape, are soluble in water, and function as transporters, regulators, and enzymes.

What is the role of the haem group in haemoglobin, and how does it contribute to the protein's function?

The haem group in haemoglobin is responsible for binding to oxygen in the lungs, facilitating the transport of oxygen throughout the body.

What is the difference between the quaternary structure of haemoglobin and its classification as a globular or fibrous protein?

Haemoglobin has a quaternary structure that consists of four subunits held together by non-covalent bonds, and it is classified as a globular protein due to its spherical shape and solubility in water.

Study Notes

General Structure of Amino Acids

  • Central carbon (alpha carbon) covalently bonded to: carboxyl group, amino group, H atom, and unique organic side chain (R group)
  • R group can be non-polar, polar, linear, or ringed, providing each amino acid with distinct chemical and physical properties

Condensation Reactions and Peptide Bonds

  • Amino acids join together through condensation reactions to form dipeptides and longer chains
  • Peptide bond formed when carboxyl group of one amino acid reacts with amino group of another amino acid
  • Water is released as a byproduct, and the peptide bond is a type of covalent bond that is very stable

Properties of Peptide Chains

  • N-terminal (amino terminal) end of the dipeptide has a free amino group not involved in the peptide bond
  • C-terminal (carboxyl terminal) end of the dipeptide has an unbound carboxyl group
  • One end of the protein must have an amine group, and the other end must have a carboxyl group

Dietary Requirements for Amino Acids

  • Essential amino acids: cannot be produced by the body, must be obtained from food
  • Non-essential amino acids: produced by the body from other amino acids or breakdown of proteins

Protein Structures

Globular Proteins

  • Compact and globular shape
  • Hydrophilic exterior and hydrophobic interior
  • Hydrophilic exterior allows reaction with water and other hydrophilic molecules in the blood
  • Hydrophobic interior stabilizes the shape of the protein and maintains its globular shape
  • Example: insulin

Fibrous Proteins

  • Long and narrow shape (elongated)
  • Repeating structures designed for strength and stability
  • Insoluble in water
  • Example: collagen, which forms the main component of connective tissue in animals

Quaternary Structure

  • Arrangement and interaction of two or more polypeptide chains to form a functional protein
  • Example: haemoglobin, which has four individual polypeptide chains (2 alpha chains and 2 beta chains)

Conjugated and Non-Conjugated Proteins

  • Non-conjugated proteins: consist only of polypeptide subunits
  • Conjugated proteins: have non-protein components such as metal ions or carbohydrates in addition to polypeptide subunits

Protein Folding and Classification

  • Polypeptide chain is synthesized and undergoes protein folding to adopt a 3D shape critical for proper function
  • Folding process influenced by hydrogen bonding, ionic bonding, hydrophobic interaction, sequence of amino acids, and cellular environment
  • Classified as either globular or fibrous proteins based on shape, solubility, and function

Genetic Code and Protein Synthesis

  • Genetic code specifies how information stored in DNA is translated into the sequence of amino acids that make up proteins
  • Provides instructions for protein synthesis through transcription and translation
  • Composed of codons, which are groups of three nucleotides that specify the type of amino acid or stop signal required

Examples of Polypeptides

  • Lysozyme: 129 amino acids, present in tears and saliva, with antimicrobial properties
  • Alpha-neurotoxins: 60-75 amino acids, present in snake venom, targeting and disrupting the nervous system
  • Glucagon: 29 amino acid residues, regulating blood sugar levels by releasing glucose
  • Myoglobin: 153 amino acid residues, oxygen-binding protein found in muscle tissues, facilitating storage and release of oxygen to muscle fibers

Chemical Diversity of Amino Acids

  • R group of amino acids determines properties of the assembled polypeptides
  • R groups can be hydrophobic (non-polar) or hydrophilic (polar/charged), attracting or repelling water molecules

Primary Structure of Proteins

  • Primary structure: specific sequence of amino acids that are joined together to form a polypeptide chain

Secondary Structure of Proteins

  • Secondary structure: local folding pattern that occurs within the polypeptide chain
  • Alpha helices and beta pleated sheets formed through hydrogen bonding between amino acids

Tertiary Structure of Proteins

  • Tertiary structure: further folding of the polypeptide chain, dependent on the interaction between R groups
  • Interactions include hydrogen bonds, ionic bonds, disulfide covalent bonds, and hydrophobic interactions

Effect of Polar and Non-Polar Amino Acids on Tertiary Structure

  • Hydrophilic polar amino acids face the aqueous environment
  • Hydrophobic non-polar amino acids are protected in the core, minimizing unfavorable interactions with water molecules
  • Results in a compact structure, increasing stability

Learn about the general structure of amino acids, including the central carbon atom and its bonds. Discover how amino acids join together through condensation reactions to form dipeptides and longer chains. Test your knowledge on the chemical and physical properties of amino acids and peptide bonds.

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