Lecture 5 protein structure and function

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Questions and Answers

What primary function do carbohydrates play in biological systems, as highlighted in the provided context?

  • Storing energy and serving as structural components (correct)
  • Facilitating enzymatic reactions
  • Providing a cushioning in the form of adipose tissue
  • Encoding genetic information

Which molecule is described as offering a dynamism unseen in other biological macromolecules?

  • Proteins (correct)
  • RNA
  • DNA
  • Lipids

What is the central role of mRNA in gene expression, as inferred from the text provided?

  • Storing genetic information
  • Serving as a structural element
  • Having a central role in information processing (correct)
  • Providing cushioning in the form of adipose tissue

According to the provided text, what aspect of macromolecules in biology is tightly correlated to their function?

<p>Their specific three-dimensional structure (A)</p> Signup and view all the answers

In the 'pre-life RNA world,' what best describes the function that RNA fulfilled?

<p>The role of proteins (B)</p> Signup and view all the answers

What is the primary cause of diseases such as Alzheimer's, Parkinson's, and Huntington's?

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

What is the name of the bond formed when two amino acids are joined?

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

Where is the polypeptide sequence ultimately determined?

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

What is the term for a chain of amino acids containing just a few residues?

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

How are the side chains arranged in a primary structure?

<p>Alternating position along the backbone (A)</p> Signup and view all the answers

Which method for determining protein structure does not require protein crystallization?

<p>Nuclear magnetic resonance (NMR) spectroscopy (A)</p> Signup and view all the answers

What is a primary advantage of using artificial intelligence in bioinformatics for protein structure prediction?

<p>It reduces computational time significantly. (A)</p> Signup and view all the answers

What distinguishes antiparallel β sheets from parallel β sheets?

<p>Antiparallel β sheets are more common in proteins. (A)</p> Signup and view all the answers

Which resource would be most helpful to use when searching for a specific peer-reviewed research article about protein structure?

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

Why is understanding a protein’s structure considered important?

<p>It can reveal the protein's function and how it works. (D)</p> Signup and view all the answers

Which type of protein structure is most directly associated with the formation of amyloid structures?

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

Where would you look to find examples of general protein functions?

<p>In a quick reference guide. (A)</p> Signup and view all the answers

What is a key factor determining a protein's tertiary structure?

<p>Interactions between the side chains of amino acid residues. (A)</p> Signup and view all the answers

What type of bond, crucial for the stability of some proteins like antibodies, is formed between cysteine residues?

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

If a protein containing disulfide bridges is boiled, how would this most likely affect its structure?

<p>The disulfide bonds will break and the structure may be altered. (B)</p> Signup and view all the answers

During protein synthesis, where are amino acids added to the growing polypeptide chain?

<p>To the C-terminus (A)</p> Signup and view all the answers

What type of bond is primarily responsible for the formation of secondary structures in proteins?

<p>Hydrogen bonds between backbone constituents (A)</p> Signup and view all the answers

Which of the following best describes the typical structure of an alpha helix?

<p>A right-handed coil (C)</p> Signup and view all the answers

Which secondary structure is frequently found in membrane-bound proteins when crossing the lipid bilayer?

<p>Alpha (α) helix (D)</p> Signup and view all the answers

What term describes the flexible regions of a polypeptide that connect structured domains?

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

Why is secondary structure in proteins generally consistent?

<p>Due to hydrogen bonding along the backbone (D)</p> Signup and view all the answers

What is the key difference between asparagine/glutamine and aspartate/glutamate?

<p>Asparagine and glutamine have amide groups, while aspartate and glutamate have carboxyl groups on their side chains. (B)</p> Signup and view all the answers

What kind of structure can be formed by intertwined alpha helices?

<p>Coiled-coil (A)</p> Signup and view all the answers

Why does phosphorylation of serine, threonine, or tyrosine affect a protein's function?

<p>Phosphorylation introduces a bulky, highly negative charge, altering ionic and polar interactions. (D)</p> Signup and view all the answers

What are the two ends of the growing polypeptide chain called?

<p>The amino-terminus and carboxy-terminus (B)</p> Signup and view all the answers

Which characteristic makes serine, threonine, and tyrosine hydrophilic?

<p>They have hydroxyl groups capable of hydrogen bonding. (D)</p> Signup and view all the answers

What is a key structural feature of cysteine that is important for protein function?

<p>Its thiol group. (C)</p> Signup and view all the answers

What kind of bonds can acidic amino acid side chains form within a cell?

<p>Ionic bonds with positively charged (basic) residues, and other ionized molecules. (B)</p> Signup and view all the answers

How do acidic amino acid side chains enhance the water solubility of a polypeptide?

<p>By interacting with the positive dipoles of water and other molecules. (B)</p> Signup and view all the answers

How do basic amino acid side chains contribute to a polypeptide's structure and function?

<p>By forming ionic bonds and dipole interactions within a polypeptide. (B)</p> Signup and view all the answers

How do proteins typically achieve their lowest energy conformation during synthesis?

<p>Through the attraction and repulsion of different protein domains. (A)</p> Signup and view all the answers

Flashcards

Protein Functionality

Proteins are dynamic molecules driving biological activity through interactions.

Role of Carbohydrates

Carbohydrates store energy and provide structural support in cells.

Function of Lipids

Lipids store energy, provide cushioning, and form cell membranes.

DNA vs RNA

DNA stores genetic information; RNA assists in gene expression and has other functions.

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Structure-Function Relationship

The function of proteins is tightly linked to their structure.

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Misfolded Proteins

Proteins that have not folded into their correct shape, potentially losing function.

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Primary Structure

The unique sequence of amino acids in a polypeptide, encoded in DNA.

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Peptide Bond

A covalent bond formed between two amino acids when they join.

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β Sheet

A secondary structure in proteins characterized by rigid folding patterns.

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Antiparallel β Sheets

The most common form of β sheets where adjacent strands run in opposite directions.

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Dipeptide

A molecule formed from two amino acids linked by a peptide bond.

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Polypeptide

A long chain of amino acids (many residues) forming a protein.

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Amyloid Structure

Insulin-like aggregates of β sheets linked to neurodegenerative diseases.

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Tertiary Structure

3D shape of a protein formed by interactions among amino acid side chains.

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Disulfide Bridges

Covalent bonds between cysteine residues that stabilize protein structure.

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Asparagine and Glutamine

Amino acids similar to aspartate and glutamate, with amide side chains.

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Phosphorylation

The addition of a phosphate group to amino acids, affecting protein function.

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Hydrophilic Amino Acids

Amino acids that interact well with water due to polar side chains.

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Cysteine Structure

An amino acid containing a thiol group important for protein structure.

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Acidic Side Chains

Amino acids with additional carboxylic groups, typically negatively charged in cells.

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Basic Side Chains

Amino acids with nitrogenous groups that can form ionic bonds and enhance solubility.

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Protein Folding

The process of polypeptides folding into their lowest energy conformation during synthesis.

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Water's Role in Protein Structure

Water influences the conformation and stability of protein structures.

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Unstructured Regions

Flexible parts of the polypeptide that do not have a defined structure, found between structured regions.

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Secondary Structure

Regions of the polypeptide chain that are stabilized by hydrogen bonds, forming coils or folds.

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α Helix

A right-handed coil formed by hydrogen bonds in a polypeptide's secondary structure.

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β Pleated Sheet

A sheet-like structure formed by hydrogen bonding between segments of a polypeptide chain.

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Membrane-Bound Proteins

Proteins that often cross the lipid bilayer as α helices, functioning as enzymes or receptors.

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Coiled-Coil

A structure formed by intertwined α helices that creates a stiff, elongated protein.

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Hydrogen Bonds

Weak interactions that stabilize the secondary structure of proteins, connecting parts of the polypeptide backbone.

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Nuclear Magnetic Resonance (NMR)

A spectroscopy method for investigating protein structure without crystallization, but less informative.

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Bioinformatics

The use of computational tools to predict protein structures from amino acid sequences, needing high computing power.

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Artificial Intelligence in Bioinformatics

AI significantly speeds up the computation in bioinformatics, improving efficiency in predicting protein structures.

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Levels of Protein Structure

Proteins have four structural levels: primary, secondary, tertiary, and quaternary, each affecting functionality.

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Structure-Function Relationship in Proteins

The specific structure of a protein dictates its function within biological systems, essential for understanding biology.

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