High School Biology : Protein Structure

Study concepts, example questions & explanations for High School Biology

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Example Questions

Example Question #21 : Proteins

Which of the following types of amino acids would most likely be found in the center of eukaryotic globular proteins?

Possible Answers:

None of these

Polar amino acids

 

Hydrophobic amino acids

Hydrophilic amino acids

All of these

Correct answer:

Hydrophobic amino acids

Explanation:

Water is known as the “universal solvent.” Life could not exist on earth without water. Our bodies are mostly water; therefore, the environment of our cells is aqueous as well. Hydrophobic (“water fearing") amino acids would condense to "hide" from an aqueous environment. Polar and/or hydrophilic (“water loving”) amino acids would be found on the exterior of globular proteins near the aqueous environment. Hydrophobicity and hydrophilicity are major forces that drive the formation of the tertiary or three-dimensional shape of a protein post translation.

Example Question #11 : Protein Structure

In protein folding, secondary structures refer to which of the following?

Possible Answers:

Both alpha helices and beta sheets

The linear sequence of amino acids

Beta sheets only

Interactions between two or more polypeptide chains

Alpha helices only

Correct answer:

Both alpha helices and beta sheets

Explanation:

Primary structure of protein is the sequence of amino acids. Secondary structure is formed by hydrogen bonds between the peptide backbone which forms either alpha helices or beta sheets. Tertiary structure is dependent on side chains and the environment in which the protein is. Quaternary structure is conferred once bonds between two or more polypeptide chains are formed.

Example Question #22 : Proteins

In which of the following levels of protein structure will you find alpha-helices and beta-sheets? 

Possible Answers:

Tertiary

Primary

Secondary

Quaternary

Correct answer:

Secondary

Explanation:

Proteins have four levels of structure. Secondary structure involves the formation of alpha-helices and beta-sheets via hydrogen bonding between the amino acid backbone in the protein chain. 

Primary protein structure simply refers to the linear sequence of amino acid residues in the polypeptide chain. After initial folding of the backbone in secondary structure, functional groups of the amino acids interact to generate tertiary structure. Tertiary structure contains hydrogen bonding, hydrophobic interactions, and disulfide bridges. Some proteins then develop quaternary structure, when multiple polypeptide chains are joined as subunits to build a large protein complex. 

Example Question #31 : Proteins

Which of the following inhibitors will block the active site of a protein?

Possible Answers:

Allosteric inhibitor

All of these will block the active site of a protein

Competitive inhibitor

Uncompetive inhibitor

Non-competitive inhibitor 

Correct answer:

Competitive inhibitor

Explanation:

Proteins can be inhibited in numerous ways by different types of inhibitors. Competitive inhibitors will compete with substrate for the active site to block the protein from performing its function. If there is enough substrate and very little competitive inhibitor, proteins will perform their functions almost as if there were no competitive inhibitors.

In contrast, allosteric inhibitors bind to regions of the protein away from the active site, but change the shape of the active site such that substrate cannot bind. Since there is no direct competition, increasing substrate concentration cannot overcome allosteric inhibition. Non-competitive inhibition is a type of allosteric inhibition. Uncompetitive inhibition occurs when the inhibitor will only bind to the enzyme-substrate complex, locking the substrate in place and preventing other substrates from binding.

Example Question #31 : Proteins

The active site of a protein works in a way similar to __________.

Possible Answers:

a lock and key

a gate in a fence

a hole in a wall

the shuffle button on an MP3 player

a motor in a car

Correct answer:

a lock and key

Explanation:

The active site on a protein is the area where a substrate can attach. This relationship is most often described using a metaphor of a lock and a key because each protein has an active site specific to one substrate much like a lock can only be opened by one key.

Example Question #31 : Proteins

__________ modification of an enzyme permits an effector molecule to bind the enzyme at a site other than the active site. This can modulate the enzyme's activity to make it either more or less active.

Possible Answers:

Agonist

Antagonist

Cofactor

Inhibitory 

Allosteric

Correct answer:

Allosteric

Explanation:

The key here is to know that if something binds the enzyme at a location other than the active site, the type of modification is defined as allosteric. The other words more generally describe things that can bind to receptors, enzymes, etc., but the best and most specific answer is "allosteric."

Example Question #4 : Understanding Active Sites

Which of the following best describes why an enzyme loses its catalytic capabilities when exposed to extremely high temperatures?

Possible Answers:

All of these statements describe mechanisms by which heat destroys the catalytic activity of an enzyme

Covalent modifications made to the enzyme are disrupted by high temperatures and the enzyme cannot bind its substrate

All substrates are degraded at high temperatures, and therefore there is no reaction to catalyze

The activation energy of the reaction becomes so great that the enzyme cannot overcome the energy, and therefore cannot catalyze reactions

The bonds maintaining the shape of the enzyme are broken, and the active site loses its conformation and can no longer bind its proper substrate

Correct answer:

The bonds maintaining the shape of the enzyme are broken, and the active site loses its conformation and can no longer bind its proper substrate

Explanation:

It is important to know that when exposed to high temperatures, all proteins become denatured, and lose their native shape/conformation.

This has nothing to do with the activation energy of the reaction (eliminating that answer). While some substrates may be degraded at high temperatures, the word "all" renders this answer incorrect, nor does this describe what happens to the enzyme. Covalent modificatinos can change enzymatic function, but do not have anything to do with higher temperature.

The correct answer is that the enzyme itself is denatured, thus changing the shape and the way the active site is shaped, resulting in an inability to efficiently bind its substrate. The structure of the enzyme is dictated by intermolecular forces, which are susceptible to interference from temperature changes (unlike covalent bonds).

Example Question #32 : Proteins

Which mode of enzyme inhibition involves an inhibitor molecule binding the active site of the enzyme?

Possible Answers:

Competitive inhibition

Non-competitive inhibition

Uncompetitive inhibition

Mixed inhibition

Irreversible inhibition

Correct answer:

Competitive inhibition

Explanation:

Competitive inhibition is the only type of inhibition in which the inhibitor molecule directly binds the active site of the enzyme, thereby 'competing' with the actual substrate for location on the enzyme. The other choices involve binding elsewhere on the enzyme (non-competitive) or binding the enzyme-substrate complex but not an isolated enzyme (mixed), but none of them describe binding the active site except for competitive. 

Example Question #1 : Understanding Protein Classifications

Collagen is an example of which type of protein?

Possible Answers:

Integral protein

Globular protein

Enzyme

Structural protein

Correct answer:

Structural protein

Explanation:

Collagen is the most abundant protein in the human body. It adds great strength and flexibility to skin, tendons, and ligaments. These qualities are characteristic of structural proteins.

Globular proteins are generally rounded, protecting a nonpolar center from the aqueous environment around the protein. Most cytoplasmic proteins and enzymes are globular proteins. In contrast, fibrous proteins are generally elongated and designed for structural support; collagen is a fibrous protein, in addition to a structural protein. Integral proteins span the plasma membrane, often creating channels.

Example Question #33 : Proteins

Which of the following refers to the bond between two amino acids?

Possible Answers:

Polar bond

Ionic bond

Ester bond

Peptide bond

Glycosidic bond

Correct answer:

Peptide bond

Explanation:

A peptide bond is formed between the carboxyl group and amino group of adjoining amino acids. The energy in proteins is released when peptide bonds are broken. Peptide bonds also determine the primary structure of proteins.

An ionic bond is formed when one element loses an electron and another element gains an electron. Ionic bonds most frequently form between metals and non-metals, and are not commonly seen in proteins.

A glycosidic bond is formed between a carbohydrate and another molecule. Glycosidic bonds can help form carbohydrate polymers, like glycogen, or link sugars to other groups, like in the DNA backbone.

An ester bond can be found in fatty acids, and contains a carbonyl group next to an ether linkage.

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