R :X 2 X R A. Inspect the figure. Draw a reaction coordinate diagram (energy vs reaction progress) that shows the enzyme- catalyzed reaction (as shown above) and uncatalyzed reaction. Make sure your sketch accurately reflects relative free energies of various species. B. What are the chemical roles of 1 and 2 in the enzyme-catalyzed reaction shown in Model 3? C. Propose specific amino acid side chains that could best serve the functions of 1 and 2 in the enzyme depicted in Model 3. Justify your choices.
Electronic Effects
The effect of electrons that are located in the chemical bonds within the atoms of the molecule is termed an electronic effect. The electronic effect is also explained as the effect through which the reactivity of the compound in one portion is controlled by the electron repulsion or attraction producing in another portion of the molecule.
Drawing Resonance Forms
In organic chemistry, resonance may be a mental exercise that illustrates the delocalization of electrons inside molecules within the valence bond theory of octet bonding. It entails creating several Lewis structures that, when combined, reflect the molecule's entire electronic structure. One Lewis diagram cannot explain the bonding (lone pair, double bond, octet) elaborately. A hybrid describes a combination of possible resonance structures that represents the entire delocalization of electrons within the molecule.
Using Molecular Structure To Predict Equilibrium
Equilibrium does not always imply an equal presence of reactants and products. This signifies that the reaction reaches a point when reactant and product quantities remain constant as the rate of forward and backward reaction is the same. Molecular structures of various compounds can help in predicting equilibrium.
![### General Method Used by Enzymes to Catalyze the First Step of a 1,4-Elimination Reaction
In the provided figure, enzymes utilize two generic proton donors and acceptors, labeled as 1 and 2, to catalyze the initial step of a 1,4-elimination reaction. These components are a part of the enzyme's active site. For clarity, the rest of the polypeptide chain that surrounds the substrate in the active site and isolates it from the bulk solvent is not depicted in the figure.
The figure shows two structural diagrams:
1. **Starting Structure:**
- A molecule with an X group bonded to carbon (C) which is double-bonded to an oxygen (O) and single-bonded to another group (R).
- Proton donor and acceptor sites, denoted as 1 (~ XH) and 2 (~ X), are also depicted.
2. **Reaction Intermediate:**
- A molecule transformed to show changes in bonding, with an addition of an OH group next to the X group.
- Proton donor and acceptor sites have facilitated the formation of the intermediate structure.
### Mandated Tasks:
**A.** Inspect the figure. Draw a reaction coordinate diagram (energy vs. reaction progress) that shows the enzyme-catalyzed reaction (as shown above) and the uncatalyzed reaction. Ensure that your sketch accurately reflects the relative free energies of various species.
**B.** What are the chemical roles of 1 and 2 in the enzyme-catalyzed reaction shown in Model 3?
**C.** Propose specific amino acid side chains that could best serve the functions of 1 and 2 in the enzyme depicted in Model 3. Justify your choices.
### Explanation of the Diagram:
- **Reactant State**: The starting structure with X group, carbon double-bonded to oxygen, single-bonded to R, and involving proton donor and acceptor sites (1 and 2).
- **Intermediate State**: The intermediate structure highlights the transformation facilitated by the enzyme.
- **Roles of Proton Donor and Acceptor Sites**:
- **Site 1 (~ XH)**: Acts as a proton donor.
- **Site 2 (~ X)**: Acts as a proton acceptor.
To complete these tasks, students should analyze the given reaction mechanism, draw appropriate energy diagrams showcasing the catalyzed and](/v2/_next/image?url=https%3A%2F%2Fcontent.bartleby.com%2Fqna-images%2Fquestion%2F7eb16600-8f07-40f7-854e-83024f28a747%2F85dfa3b2-65b1-426a-ac5c-be27a2208c1f%2F4lvrwwj_processed.png&w=3840&q=75)
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