AQA A-Level Chemistry Paper 2, 2017: Question 6

10 marks · Medium difficulty · Long Answer

Draw structures of amino acid forms and dipeptides of phenylalanine and serine, then name, outline the mechanism, and name the product for the acylation reaction of propanoyl chloride with ethylamine.

Practise this question

Question

Question 06 contains four parts: 06.1 asks to draw the structure of the zwitterion formed by phenylalanine (1 mark). 06.2 asks to draw the structure of serine at high pH (1 mark). 06.3 asks to draw the structures of both dipeptides formed when phenylalanine reacts with serine, showing all atoms and bonds in the amide link (2 marks). 06.4 states an amide link is also formed when an acyl chloride reacts with a primary amine, asking to name and outline the mechanism for the reaction between CH3CH2COCl and CH3CH2NH2, and give the IUPAC name of the organic product (6 marks).
Question text

06 Use the Data Booklet to help you answer this question.

This question is about amino acids and peptide (amide) links.

06.1 Draw the structure of the zwitterion formed by phenylalanine.

[1 mark]

06.2 Draw the structure of serine at high pH.

[1 mark]

06.3 Draw the structures of both dipeptides formed when phenylalanine reacts with

serine.

In each structure show all the atoms and bonds in the amide link. Do

13 [2 marks]ou

06.4 An amide link is also formed when an acyl chloride reacts with a primary

amine.

Name and outline a mechanism for the reaction between CH3CH2COCl and

CH3CH2NH2

Give the IUPAC name of the organic product.

[6 marks]

Name of mechanism

Mechanism

IUPAC name of organic product

Mark scheme

Show the mark scheme Mark scheme for Question 06: 06.1 shows the zwitterion of phenylalanine with H3N+-CH(CH2C6H5)-COO-. 06.2 shows serine at high pH as H2N-CH(CH2OH)-COO-. 06.3 shows the two dipeptide structures with displayed -CO-NH- links between Phe and Ser in both orientations. 06.4 gives the mechanism name as '(nucleophilic) addition-elimination' (M1), mechanism steps M2 to M5 showing nucleophilic attack of the amine nitrogen onto the carbonyl carbon, formation of tetrahedral intermediate, elimination of chloride and deprotonation, and IUPAC product name 'N-ethylpropanamide' (M6).

Question Answers Mark Additional Comments/Guidance

Allow -CO

H3N CH C O

Allow +H N- and NH +

CH2 O 3 3

06.1 1

H2N CH COO

06.2 1

CH2OH

H2N CH C N CH COOH If same wrong amino acid twice – max 1

CH2 O H CH2OH

06.3 HOOC CH N C CH NH

CH2 H O CH2OH

– – –

21 of 32

(nucleophilic) addition-elimination M1 Not electrophilic addition-elimination.

M2 for arrow from lp on N to C

(or to space half way between N and C)

M3 Ignore + and unless wrong

M4

O O

M3 for arrow from C=O bond to O

CH3CH2 C CH3CH2 C Cl M5 for 3 arrows and lp Not score M3 as an independent first step, but can allow M2

Cl for attack on C+ produced

CH3CH2 N H

CH CH NH If Cl lost at this stage, Max 1 for mechanism for M2

32 2 H M2 –

06.4 M2 RNH M5

2 M4 for structure of ion including 2 charges

(+ on N must be correct in both cases if drawn twice)

O

CH3CH2 C M5 for 3 arrows and lp on O

NH - may be scored in two steps

CH2CH3

Ignore use of RNH to remove H+ in M5, but penalise use of

Cl

N-ethylpropanamide M6

Total 10

How to answer it

Amino Acids, Peptide Links & Acylation Mechanism

AQA A-Level Chemistry • Paper 2 • Organic Chemistry (10 Marks Total)

📋 What this question tests

This question evaluates core Year 2 organic synthesis and biochemistry concepts:

  • Zwitterions: Internal proton transfer forming dipolar ions at the isoelectric point.
  • pH dependence of amino acids: Behavior of basic ( -NH₂ ) and acidic ( -COOH ) groups in alkaline solutions.
  • Condensation reactions: Forming dipeptide isomers by linking carboxylic acid and amine ends with fully displayed amide bonds ( -CONH- ).
  • Acyl chloride mechanisms: Step-by-step nucleophilic addition-elimination between an acyl chloride and a primary amine, including curly arrows, charges, lone pairs, and standard IUPAC nomenclature for secondary amides.

Question 06.1

Zwitterion Structure of Phenylalanine [1 Mark]

✅ Correct Answer

Draw phenylalanine showing both formal charges (+ and −) on the molecule:

⁺H₃N — CH — COO⁻
        |
       CH₂
        |
       C₆H₅ (benzene ring)

Mark scheme: 1 mark for correct dipolar structure. Either ⁺H₃N— or H₃N⁺— is accepted. Either —COO⁻ or displayed —C(=O)O⁻ is accepted.

💡 Key Knowledge

  • An amino acid has both a basic amino group and an acidic carboxyl group.
  • In a zwitterion, the proton transfers from the carboxylic acid to the amine:
    -COOH + -NH₂ → -COO⁻ + -NH₃⁺
  • The side chain for phenylalanine from the Data Booklet is -CH₂C₆H₅ (benzyl group). It is non-polar and does not ionise.

🧠 Exam Technique

Always consult the Data Booklet for the exact side chain ( R group). Be careful when placing the positive charge: place it clearly on or next to the Nitrogen atom, never on the carbon backbone.

❌ Common Errors

  • Forgetting to show the charges entirely (drawing unionised H₂N-CH(R)-COOH ).
  • Ionising only one end (giving a net +1 or -1 ion instead of a neutral zwitterion).
  • Drawing the side chain incorrectly (e.g. omitting the -CH₂- spacer between the α-carbon and the benzene ring).

Question 06.2

Structure of Serine at High pH [1 Mark]

✅ Correct Answer

At high pH (alkaline conditions, excess OH⁻), the amino acid acts as an acid and loses a proton from the carboxyl group:

H₂N — CH — COO⁻
       |
      CH₂OH

Mark scheme: 1 mark for the deprotonated carboxylate anion with an unprotonated amine group. (Alcohol side chain -CH₂OH remains intact).

💡 Key Knowledge

  • High pH (alkaline): OH⁻ ions remove protons → -COOH becomes -COO⁻ , while -NH₂ remains unionised.
  • Low pH (acidic): H⁺ ions protonate basic groups → -NH₂ becomes -NH₃⁺ , while -COOH remains neutral.
  • Aliphatic alcohol groups (like the -CH₂OH in serine) are far too weakly acidic to deprotonate in aqueous alkali (unlike phenolic -OH ).

🧠 Exam Technique

Think: "High pH = Base = Wants to remove H⁺". The most acidic proton is on the -COOH group. The product must carry a net negative charge ( -1 ).

❌ Common Errors

  • Leaving the nitrogen protonated as -NH₃⁺ in alkali.
  • Deprotonating the alcoholic -OH group on serine to -O⁻ (alcohols do not deprotonate at normal high pH).

Question 06.3

Dipeptides Formed from Phenylalanine and Serine [2 Marks]

✅ Correct Answer

Because amino acids are non-symmetrical, two constitutional isomeric dipeptides can form. The peptide link must show all atoms and all bonds: -C(=O)-N(H)- .

1. Phe-Ser (Phenylalanine N-terminus, Serine C-terminus):
                O   H
                ||  |
H₂N — CH —————— C — N — CH — COOH
      |
     CH₂-C₆H₅            CH₂OH
2. Ser-Phe (Serine N-terminus, Phenylalanine C-terminus):
              O   H
              ||  |
H₂N — CH ———— C — N — CH — COOH
      |
     CH₂OH             CH₂-C₆H₅

Mark scheme: 1 mark for each correct dipeptide structure. Note: If the candidate draws the same incorrect amino acid twice, max 1 mark.

🧠 Exam Technique: "Show All Atoms and Bonds"

When the question states: "show all the atoms and bonds in the amide link", writing condensed -CONH- will score 0 marks for that link! You must explicitly draw:

  • The carbon-to-oxygen double bond: C=O
  • The carbon-to-nitrogen single bond: C—N
  • The nitrogen-to-hydrogen single bond: N—H

❌ Common Errors

  • Drawing two identical dipeptides instead of swapping the N-terminus and C-terminus.
  • Drawing a condensed peptide link -CONH- and losing the mark despite correct connectivity.
  • Inverting connectivity (e.g. connecting side-chain -OH instead of the α-amino or α-carboxyl groups).

Question 06.4

Acyl Chloride + Primary Amine: Mechanism & Product Name [6 Marks]

💡 Reaction Overview

Reactants: Propanoyl chloride ( CH₃CH₂COCl ) + Ethylamine ( CH₃CH₂NH₂ )

Overall Equation: CH₃CH₂COCl + 2 CH₃CH₂NH₂ → CH₃CH₂CONHCH₂CH₃ + CH₃CH₂NH₃⁺Cl⁻

✅ 1. Name of Mechanism [1 Mark, M1]

(nucleophilic) addition-elimination

Examiner note: "Electrophilic addition-elimination" is penalized and scores 0.

✅ 2. IUPAC Name of Organic Product [1 Mark, M6]

N-ethylpropanamide

Examiner note: Must have the capital N- prefix to show that the ethyl group is substituted onto nitrogen.

📐 Mechanism Breakdown [4 Marks, M2–M5]

Step 1: Nucleophilic Attack

  • M2: Curly arrow from the lone pair on N of CH₃CH₂NH₂ to the carbonyl carbon atom ( C=O ).
  • M3: Curly arrow from the C=O double bond onto the oxygen atom.

Step 2: Tetrahedral Intermediate Structure

  • M4: Draw correct intermediate:
               :O:⁻
               |
    CH₃CH₂ — C — Cl
               |
             ⁺NH₂—CH₂CH₃
    Must clearly show the negative charge on Oxygen (O⁻) and the positive charge on Nitrogen (N⁺).

Step 3: Elimination (3 Curly Arrows)

  • M5: Three simultaneous/sequential arrows:
    1. Arrow from lone pair on O:⁻ back to reform the C=O double bond.
    2. Arrow from the C—Cl bond to the chlorine atom (expelling Cl⁻ ).
    3. Arrow from an N—H bond to the N⁺ atom (loss of proton). Note: A second amine molecule :NH₂CH₂CH₃ removing the H⁺ is accepted; using Cl⁻ to remove H⁺ is penalised.

❌ Common Pitfalls in Nucleophilic Addition-Elimination

  • One-step displacement (SN2 style): Showing the chloride ion leaving at the exact same time the amine attacks in the first step. Acyl chloride substitutions always proceed via the tetrahedral addition intermediate! (If Cl is lost in step 1, max 1 mark for M2 only).
  • Missing charges in M4: Candidates frequently omit the positive charge on Nitrogen ( N⁺ ) or the negative charge on Oxygen ( O⁻ ). Both are compulsory for M4.
  • Arrow starting points: Curly arrows must start strictly from a bond or a lone pair. An arrow starting from an atom symbol or a plus/minus charge sign loses the mark.
  • Naming error: Omitting the " N- " in N-ethylpropanamide or writing "propanamide-ethyl".

Topics

Organic Chemistry · 3.3.1 Introduction to Organic Chemistry · 3.3.9 Carboxylic Acids and Derivatives · 3.3.11 Amines · 3.3.13 Amino Acids, Proteins and DNA

Question and mark scheme from the AQA A-Level Chemistry examination, Paper 2, 2017. QuestionVault is an independent revision resource; questions remain the copyright of the awarding body.