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Example Questions
Example Question #1 : Protein Structure
Which of the following describes induced fit regarding enzyme/substrate binding?
None of these are examples of induced fit
Upon binding to the enzyme, the substrate changes its own shape so that it fits perfectly
Upon binding to the enzyme, the substrate changes the shape of the enzyme so that it fits perfectly
All of these are examples of induced fit
Upon binding to the enzyme, the substrate already fits perfectly into the active site
Upon binding to the enzyme, the substrate changes the shape of the enzyme so that it fits perfectly
The induced fit model explains one method by which an enzyme's active site can accept some specific substrate. Initially, the active site might not be a perfect match for the substrate, however, when the substrate enters into the site, it can change the conformation of the enzyme just enough that it now fits perfectly and can be acted upon by the enzyme.
Example Question #2 : Protein Structure And Functions
Suppose that the active site of an enzyme contains amino acid residues at the following positions:
Residue 
Residue 
Residue 
Residue 
Which of the following amino acid substitutions would be least likely to affect the activity of this enzyme?
A substitution at any of these positions would render the enzyme inactive
Lysine at position
Tryptophan at position
Aspartate at position
Asparagine at position
Lysine at position
To answer this question, we need to have a general understanding about amino acid properties. For instance, at physiological pH, some amino acid side chains will carry a negative charge, some will carry a positive charge, and others will be neutral. Thus, we'll need to take note of which amino acid characteristics each position has, and then evaluate each answer choice to see if the new amino acid being substituted has different characteristics.
At position
Now that we have the characteristics of the amino acid residues in the enzyme, let's compare them to the substitutions listed in the answer choices.
Substituting an aspartate residue into position
Substituting a tryptophan residue into position
Substitution of an asparagine residue into position
Finally, let's consider the substitution of arginine at position
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