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Organic Chemistry I: 3.2 Organic Acids and Bases and Organic Reaction Mechanism

Organic Chemistry I
3.2 Organic Acids and Bases and Organic Reaction Mechanism
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table of contents
  1. Cover
  2. Title Page
  3. Copyright
  4. Table Of Contents
  5. Introduction
  6. Acknowledgements
  7. Chapter 1 Basic Concepts in Chemical Bonding and Organic Molecules
    1. 1.1 Chemical Bonding
    2. 1.2 Lewis Structure
    3. 1.3 Resonance Structures
    4. 1.4 Resonance structures in Organic Chemistry
    5. 1.5 Valence-Shell Electron-Pair Repulsion Theory (VSEPR)
    6. 1.6 Valence Bond Theory and Hybridization
    7. Answers to Practice Questions Chapter 1
  8. Chapter 2 Fundamental of Organic Structures
    1. 2.1 Structures of Alkenes
    2. 2.2 Nomenclature of Alkanes
    3. 2.3 Functional Groups
    4. 2.4 IUPAC Naming of Organic Compounds with Functional Groups
    5. 2.5 Degree of Unsaturation/Index of Hydrogen Deficiency
    6. 2.6 Intermolecular Force and Physical Properties of Organic Compounds
    7. Answers to Practice Questions Chapter 2
  9. Chapter 3 Acids and Bases: Organic Reaction Mechanism Introduction
    1. 3.1 Review of Acids and Bases and Ka
    2. 3.2 Organic Acids and Bases and Organic Reaction Mechanism
    3. 3.3 pKa of Organic Acids and Application of pKa to Predict Acid-Base Reaction Outcome
    4. 3.4 Structural Effects on Acidity and Basicity
    5. 3.5 Lewis Acids and Lewis Bases
    6. Answers to Practice Questions Chapter 3
  10. Chapter 4 Conformations of Alkanes and Cycloalkanes
    1. 4.1 Conformation Analysis of Alkanes
    2. 4.2 Cycloalkanes and Their Relative Stabilities
    3. 4.3 Conformation Analysis of Cyclohexane
    4. 4.4 Substituted Cyclohexanes
    5. Answers to Practice Questions Chapter 4
  11. Chapter 5 Stereochemistry
    1. 5.1 Summary of Isomers
    2. 5.2 Geometric Isomers and E/Z Naming System
    3. 5.3 Chirality and R/S Naming System
    4. 5.4 Optical Activity
    5. 5.5 Fisher Projection
    6. 5.6 Compounds with More Than One Chirality Centers
    7. Answers to Practice Questions Chapter 5
  12. Chapter 6 Structural Identification of Organic Compounds: IR and NMR Spectroscopy
    1. 6.1 Electromagnetic Radiation and Molecular Spectroscopy
    2. 6.2 Infrared (IR) Spectroscopy Theory
    3. 6.3 IR Spectrum and Characteristic Absorption Bands
    4. 6.4 IR Spectrum Interpretation Practice
    5. 6.5 NMR Theory and Experiment
    6. 6.6 ¹H NMR Spectra and Interpretation (Part I)
    7. 6.7 ¹H NMR Spectra and Interpretation (Part II)
    8. 6.8 ¹³C NMR Spectroscopy
    9. 6.9 Structure Determination Practice
    10. Answers to Practice Questions Chapter 6
  13. Chapter 7 Nucleophilic Substitution Reactions
    1. 7.1 Nucleophilic Substitution Reaction Overview
    2. 7.2 SN2 Reaction Mechanism, Energy Diagram and Stereochemistry
    3. 7.3 Other Factors that Affect SN2 Reactions
    4. 7.4 SN1 Reaction Mechanism, Energy Diagram and Stereochemistry
    5. 7.5 SN1 vs SN2
    6. 7.6 Extra Topics on Nucleophilic Substitution Reaction
    7. Answers to Practice Questions Chapter 7
  14. Chapter 8 Elimination Reactions
    1. 8.1 E2 Reaction
    2. 8.2 E1 Reaction
    3. 8.3 E1/E2 Summary
    4. 8.4 Comparison and Competition Between SN1, SN2, E1 and E2
    5. Answers to Practice Questions Chapter 8
  15. Chapter 9 Free Radical Substitution Reaction of Alkanes
    1. 9.1 Homolytic and Heterolytic Cleavage
    2. 9.2 Halogenation Reaction of Alkanes
    3. 9.3 Stability of Alkyl Radicals
    4. 9.4 Chlorination vs Bromination
    5. 9.5 Stereochemistry for Halogenation of Alkanes
    6. 9.6 Synthesis of Target Molecules: Introduction of Retrosynthetic Analysis
    7. Answers to Practice Questions Chapter 9
  16. Chapter 10 Alkenes and Alkynes
    1. 10.1 Synthesis of Alkenes
    2. 10.2 Reactions of Alkenes: Addition of Hydrogen Halide to Alkenes
    3. 10.3 Reactions of Alkenes: Addition of Water (or Alcohol) to Alkenes
    4. 10.4 Reactions of Alkenes: Addition of Bromine and Chlorine to Alkenes
    5. 10.5 Reaction of Alkenes: Hydrogenation
    6. 10.6 Two Other Hydration Reactions of Alkenes
    7. 10.7 Oxidation Reactions of Alkenes
    8. 10.8 Alkynes
    9. Answers to Practice Questions Chapter 10
  17. About the Author

3.2 Organic Acids and Bases and Organic Reaction Mechanism

3.2.1 Organic Acids

The acids that we talked about in General Chemistry usually refers to inorganic acids, such as HCl, H2SO4, HF etc. If the structure of the acid contains a “carbon” part, then it is an organic acid. Organic acids donate protons in the same way as inorganic acids, however the structure may be more complicated due to the nature of organic structures.

Carboxylic acid, with the general formula of R-COOH, is the most common organic acid that we are familiar with. Acetic acid (CH3COOH), the ingredient of vinegar, is a simple example of a carboxylic acid. The Ka of acetic acid is 1.8×10-5.

Another common organic acid is the organic derivative of sulfuric acid H2SO4.

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The replacement of one OH group in H2SO4 with a carbon-containing R (alkyl) or Ar (aromatic) group leads to the organic acid named “sulfonic acid”, with the general formula of RSO3H, or ArSO3H. Sulfonic acid is a strong organic acid with a Ka in the range of 106. The structure of a specific sulfonic acid example called p-toluenesulfonic acid is shown here:

Common name: tosylic acid, CH3C6H4SO2 is known as the tosyl, abbreviated Ts. Formula can be TsOH
Figure 3.1a CH3C6H4SO3H Tosylic acid

Other than the acids mentioned here, technically any organic compound could be an acid, because organic compounds always have hydrogen atoms that could potentially be donated as H+. Only a few examples are shown here with the hydrogen atoms highlighted in blue:

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Therefore, the scope of acids has been extended to be much broader in an organic chemistry context. We will have further discussions on the acidity of organic compounds in section 3.3, and we will see more acid-base reactions applied to organic compounds later in this chapter.

3.2.2 Organic Bases

While it is relatively straightforward to identify an organic acid since hydrogen atoms are always involved, sometimes it is not that easy to identify organic bases. According to the definition, a base is the species that is able to accept the proton. Organic bases may involve a variety of different structures, but they must all share the common feature of having electron pairs that are able to accept protons. The electron pairs could be lone pair electrons on a neutral or negative charged species, or π electron pairs. Organic bases could therefore involve the following types:

  • Negatively charged organic bases: RO–(alkyloxide), RNH–(amide), R–(alkide, the conjugate base of alkane). Since the negatively charged bases have a high electron density, they are usually stronger bases than the neutral ones.

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Note: Keep in mind that the lone pairs are usually omitted in organic structures as mentioned before. For example, with the formula of CH3NH– given, you should understand that the N actually has two pairs of lone pair electrons (as shown in the above structure) and it is a base.

  • Neutral organic bases, for example amine, C=O group and C=C group
    • Amine: RNH2, R2NH, R3N, ArNH2 etc (section 2.3). As organic derivatives of NH3, which is an inorganic weak base, amines are organic weak bases with lone pair electrons on N that are able to accept the proton.

NH3 (weak base) + (H+) = (N+)H4, H3C-NH2 (organic weak base) + (H+) = H3C-(N+)H3
Figure 3.1b weak base and organic weak base
    • Functional groups containing oxygen atoms: carbonyl group C=O, alcohol R-OH, ether R-O-R. The lone pair electrons on O in these groups are able to accept the proton, so functional groups like aldehyde, ketone, alcohol and ether are all organic bases. It may not that easy to accept this concept at the first, because these groups do not really look like bases. However, they are bases according to the definition because they are able to accept the proton with the lone pair on the oxygen atom.

Adjust your thinking here to embrace the broader scope of acids and bases in an organic chemistry context.

Here, we will take the reaction between acetone and H+ as an example, to understand the reaction deeply by exploring the reaction mechanism, and learn how to use the curved arrows to show it.
A reaction mechanism is the step-by-step electron transfer process that converts reactants to products. Curved arrows are used to illustrate the reaction mechanism. Curved arrows should always start at the electrons, and end in the spot that is receiving the electrons. The curved arrows used here are similar to those for resonance structures (section 1.4), but are not exactly same though. Please note that in resonance structures, the curved arrows are used to show how the electrons are transferred within the molecule, leading to another resonance structure. For mechanism purposes, there must be arrows that connect between species.

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Notes for the above mechanism:

  • For the acid-base reaction between C=O group and the proton, the arrow starts from the electron pair on O, and points to the H+ that is receiving the electron pair. A new O-H bond is formed as a result of this electron pair movement.
  • In this acid-base reaction, ketone is protonated by H+, so this reaction can also be called the “protonation of ketone”.
  • The product of the protonation is called an “oxonium ion”, which is stabilized with another resonance structure, carbocation.

    • Alkene (C=C): Although there are no lone pair electrons in the C=C bond of alkene, the π electrons of the C=C double bond are able to accept proton and act as base. For example:

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Example: Organic acid and base reaction

Predict and draw the products of following reaction and use curved arrow to show the mechanism.

CH3-O (has two lone pairs) -H + N (has 2 lone pairs and a negative charge) H2 =

Approach: If H+ is the acid as in previous examples, it is rather easy to predict how the reaction will proceed. However, if there is no obvious acid (or base) as in this example, how do you determine which is the acid, and which is the base?

Methanol CH3OH is neutral, and the other reactant, NH2–, is a negatively charged amide. The amide with a negative charge has higher electron density than the neutral methanol, therefore amide NH2–should act as base, and CH3OH is the acid that donates H+.

Solution:

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Exercises 3.1

Predict and draw the products of following reaction and use curved arrow to show the mechanism.

CH3OH + (CH3CH2-) =

Answers to Practice Questions Chapter 3

Annotate

Next Chapter
3.3 pKa of Organic Acids and Application of pKa to Predict Acid-Base Reaction Outcome
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