Amino Acids Quiz

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Questions and Answers

Which amino acid is classified as a weakly basic amino acid?

  • Lysine
  • Aspartate
  • Histidine (correct)
  • Threonine

How many aromatic amino acids are mentioned?

  • 5
  • 4 (correct)
  • 2
  • 3

Which amino acid has a thiol side chain?

  • Serine
  • Methionine
  • Cysteine (correct)
  • Asparagine

Which of the following amino acids contains an amide side chain?

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

What type of functional groups do Serine and Threonine contain?

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

Which amino acid is indicated to be bulky and hydrophobic?

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

Which amino acid contains a guanidine group?

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

Which of the following amino acids is classified as an amide?

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

What is the primary function of proteins in cells?

<p>They act as the machinery for enzymatic reactions. (D)</p> Signup and view all the answers

Which amino acid is considered to be non-essential due to its ability to be biosynthesized?

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

What structural feature do all 20 natural amino acids share?

<p>An amine and a carboxylic acid group. (D)</p> Signup and view all the answers

What is the configuration of all natural amino acids in terms of stereochemistry?

<p>L-configuration (B)</p> Signup and view all the answers

What characteristic of amino acid side chains generally determines their hydrophobicity?

<p>Length of the carbon chain. (C)</p> Signup and view all the answers

Which of the following amino acids has the one-letter abbreviation 'I'?

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

What common structure do amino acids form in solution?

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

Which amino acid is unique due to its unusual structure and is classified as aliphatic?

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

What is the function of RNA polymerase during transcription?

<p>It adds bases to the 3’ end of the RNA strand. (A)</p> Signup and view all the answers

Which of the following correctly describes a codon?

<p>A codon specifies the amino acid sequence. (B)</p> Signup and view all the answers

What role does tRNA play in protein synthesis?

<p>tRNA carries an amino acid to the ribosome. (D)</p> Signup and view all the answers

During which process is DNA unzipped?

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

What base pair is complementary to adenine in DNA?

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

How many bases are in a single codon?

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

Which of the following statement is true regarding translation?

<p>Translation involves ribosomes and tRNA. (A)</p> Signup and view all the answers

Which pair represents a complementary base pairing in RNA?

<p>A = U (B)</p> Signup and view all the answers

What is the primary structure of a protein determined by?

<p>The sequence of amino acids (A)</p> Signup and view all the answers

What characterizes a β-sheet in protein structure?

<p>Antiparallel alignment of protein strands (C)</p> Signup and view all the answers

How are the N-terminus and C-terminus of a protein defined?

<p>N-terminus starts the chain and C-terminus ends it. (D)</p> Signup and view all the answers

Which protein is an example of having significant β-sheet structure?

<p>Green Fluorescent Protein (GFP) (B)</p> Signup and view all the answers

What is true about the α-helix structure in proteins?

<p>It consists of 4-5 amino acids per turn of the helix. (A)</p> Signup and view all the answers

Why is predicting protein folding considered challenging?

<p>Some amino acids favor β-sheet formation over others. (A)</p> Signup and view all the answers

Which statement is true about secondary protein structures?

<p>They include structures like α-helices and β-sheets. (D)</p> Signup and view all the answers

What type of bond primarily stabilizes the α-helix structure of proteins?

<p>Hydrogen bonds along the helical axis (B)</p> Signup and view all the answers

What facilitates the cross-linking of the peptide chains in insulin?

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

Which amino acids are most commonly associated with binding to metal ions?

<p>His, Met, Asp, Glu, Cys (C)</p> Signup and view all the answers

Which statement best describes the essential amino acids?

<p>They must be obtained from dietary sources. (C)</p> Signup and view all the answers

In the context of proteins, what role do amino acids primarily serve?

<p>They facilitate enzymatic reactions. (A)</p> Signup and view all the answers

What characterizes the role of amino acids with lone-pair functionality in enzyme active sites?

<p>They facilitate interactions with metal ions. (B)</p> Signup and view all the answers

What role do hydrophobic sidechains play in proteins?

<p>They often position proteins in cell membranes. (C)</p> Signup and view all the answers

Which amino acids are known for promoting flexibility and rigidity in proteins?

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

How do acidic groups in the cellular environment behave at neutral pH?

<p>They deprotonate and become negatively charged. (B)</p> Signup and view all the answers

What type of interactions do acidic and basic sidechains form?

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

Where are hydrophobic sidechains predominantly located in proteins?

<p>In the interior away from water (A)</p> Signup and view all the answers

What is a primary function of salt bridges in proteins?

<p>To stabilize the protein structure (C)</p> Signup and view all the answers

Which interaction type is primarily involved in protein-protein recognition?

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

In terms of amino acid characteristics, what property supports protein folding in cells?

<p>Presence of nonpolar sidechains (D)</p> Signup and view all the answers

Flashcards

Amino acids

The basic building blocks of proteins and peptides.

Essential Amino acids

Amino acids that cannot be synthesized by the body and must be obtained from the diet.

Peptides

Short chains of amino acids.

Proteins

Large, complex molecules composed of amino acids linked together by peptide bonds.

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Zwitterion

An amino acid that has both a positive and negative charge.

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Amino acid core structure

The non-variable part of an amino acid, consisting of a central carbon atom bonded to an amino group, a carboxyl group, and a hydrogen atom.

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Side-chain (R-group)

The variable part of an amino acid, that determines its unique properties.

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Aliphatic side-chains

The presence of six amino acids with aliphatic side chains, generally hydrophobic.

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Acidic and Amide Amino Acids

Aspartate, Glutamate, Asparagine, and Glutamine are amino acids with side chains that contain carboxyl groups or amides.

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Basic Amino Acids

Arginine and Lysine have basic side chains, which contain either a guanidine or amine group.

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Alcoholic Amino Acids

Histidine, Tryptophan, Phenylalanine, and Tyrosine are amino acids with aromatic side chains. Histidine is weakly basic, while tyrosine is weakly acidic. Phenylalanine and Tryptophan are hydrophobic.', 'term': 'Aromatic Amino Acids', 'hint': 'Think of the 'H', 'W', 'F', and 'Y' - they're the aromatic amino acids.', 'memory_tip': 'Aromatic rings - they're like rings on a finger, but chemically they have a special smell!' }, {

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Sulfur Containing Amino Acids

Cysteine and Methionine are amino acids with side chains containing sulfur; Cysteine is a thiol, and Methionine is a thioether.

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Transcription

A process where DNA is used as a template to create a complementary RNA molecule.

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Codon

A three-base sequence in mRNA that codes for a specific amino acid. For example, the codon UUC codes for phenylalanine.

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Translation

The process of converting the genetic code from mRNA into a protein sequence.

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RNA polymerase

Enzyme responsible for synthesizing RNA during transcription.

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tRNA

A molecule that carries amino acids to the ribosome during protein synthesis. It has an anticodon that recognizes a specific codon on mRNA.

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Ribosome

A complex structure where translation takes place. It reads the mRNA codons and assembles the polypeptide chain.

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A site

The site where the next amino acid is added to the growing protein chain. The ribosome moves along the mRNA strand, reading each codon.

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P site

The site where the tRNA carrying the growing polypeptide chain is held.

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Disulfide bond

A type of covalent bond formed between two cysteine amino acid residues, where the sulfur atoms of the side chains are linked by a disulfide bridge.

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Ligands

A molecule that binds to a protein, typically at a specific site called the binding site.

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Primary Protein Structure

The linear sequence of amino acids in a protein, starting from the N-terminus and ending at the C-terminus.

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Secondary Protein Structure

The three-dimensional arrangement of a protein's polypeptide chain, formed by hydrogen bonds between backbone atoms.

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Beta Sheet

A secondary structure where polypeptide chains align in an antiparallel fashion, with hydrogen bonds forming between backbone atoms.

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Alpha Helix

A type of secondary structure formed by a helical arrangement of the polypeptide chain, stabilized by hydrogen bonds between backbone atoms.

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Tertiary Protein Structure

The three-dimensional structure of a protein, formed by interactions between side chains of amino acids.

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Quaternary Protein Structure

The overall three-dimensional structure formed by two or more polypeptide chains interacting.

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Structural Protein

A type of protein that is responsible for the structure and integrity of cells and tissues.

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Functional Protein

A protein that is involved in the processes of catalysis, transportation, and regulation within a cell.

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Hydrophobic sidechains in protein structure

Hydrophobic sidechains are found within the protein interior, driving protein folding and enabling proteins to span membranes, forming bridges or tunnels between different cellular compartments.

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Special amino acids: Gly and Pro

Glycine (Gly) and Proline (Pro) have unique structures that make them flexible and rigid respectively, often found at the ends of secondary structures and within hinge/loop regions.

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Acidic and basic sidechains in a cellular environment

In a typical cellular environment, acidic sidechains lose a proton (H+) and become negatively charged, while basic sidechains gain a proton (H+) and become positively charged.

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Electrostatic interactions between amino acids

Electrostatic interactions, formed by the attraction of opposite charges, occur between acidic and basic sidechains, contributing to protein stability and interactions.

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Salt Bridge - specific electrostatic interaction

Salt bridges, a type of electrostatic interaction, occur between charged sidechains of specific amino acids like Arginine (Arg) and Lysine (Lys).

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Visualizing electrostatic interactions in proteins

Electrostatic interactions (+blue/-red) can be visualized in protein structures, highlighting how these interactions contribute to protein interactions and stability.

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Protein-protein recognition through electrostatic interactions

Proteins can interact with each other through electrostatic interactions. This is particularly important for protein-protein recognition events.

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Importance of Electrostatic interactions in proteins

Electrostatic interactions play a vital role in protein structure and function, influencing protein folding, stability, and interactions with other molecules.

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Study Notes

Amino Acids

  • Amino acids are the building blocks of proteins and peptides.
  • Some amino acids can be produced by the body, while others must be obtained from the diet.
  • Proteins are crucial for enzymatic reactions in cells.
  • There are 20 naturally occurring amino acids.
  • All amino acids share a common core structure (NH2-CHR-COOH).
  • Amino acids are distinguished by their unique side chains (R groups).
  • In solution, amino acids exist as zwitterions.
  • All naturally occurring amino acids have the L configuration.

Types of Amino Acids

  • Aliphatic side chains: 6 amino acids with hydrophobic hydrocarbon side chains.
  • Aromatic side chains: 4 amino acids with aromatic structures. Histidine is weakly basic, tyrosine is weakly acidic, and the other two (phenylalanine and tryptophan) are bulky and hydrophobic.
  • Alcohols: 2 amino acids with alcohol side chains (serine and threonine).
  • Acids: 2 carboxylic acid side chains (aspartate and glutamate).
  • Amides: 2 amide side chains (asparagine and glutamine)
  • Bases: Guanidine and amine side chains (arginine and lysine) (both strongly basic).
  • Thiol/thioethers: 2 sulfur-containing amino acids (cysteine and methionine)
    • Selenocysteine is another sulfur containing amino acid (relatively rare).

Essential Amino Acids

  • Humans require certain amino acids from their diet because they cannot synthesize them quickly enough.
  • Valine, leucine, isoleucine, histidine, tryptophan, phenylalanine, methionine, threonine, and lysine are generally considered essential.

Peptide Bonds

  • Peptides are formed when amino acids are joined together by peptide bonds.
  • Peptide bonds are amide bonds that link the carboxyl group of one amino acid to the amino group of another.

Protein Structure

  • Primary structure: The linear sequence of amino acids in a protein.
  • Secondary structure: Local folding of the polypeptide chain (e.g., alpha-helices and beta-sheets), stabilized by hydrogen bonds.
  • Tertiary structure: The overall three-dimensional shape of a protein, stabilized by interactions between amino acid side chains. This can include several secondary structures.
  • Quaternary structure: The arrangement of multiple protein subunits in a larger protein complex.

Nucleic Acids

  • Nucleotides are the building blocks of nucleic acids(DNA and RNA)
  • Three RNA bases constitute a codon. This specifies the amino acid to be added to the protein chain
  • Example: UUC = Phenylalanine
  • Codons take place in ribosomes
  • During transcription, DNA is unzipped and RNA is generated from the DNA template strand using RNA polymerase. Bases are added to the 3' end.
  • tRNA carries amino acids to the ribosome to add to the growing protein chain. It matches its anticodon to the mRNA sequence.
  • DNA can be transcribed into mRNA to provide the template for the protein amino acid sequence.
  • The N-terminous forms the start of the protein chain and the C-terminous is where the chain is elongated.

Additional Considerations

  • Functional properties of proteins are strongly influenced by interactions between amino acid side chains.
  • Interactions, such as hydrogen bonding, electrostatic interactions, hydrophobic interactions, and disulfide bonds impact protein folding and function.
  • Some proteins have metal ion binding properties.

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