Amino Acid pKa Values

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Questions and Answers

Which amino acid residue has a pKa value closest to physiological pH (~7.4), making it a crucial player in enzymatic catalysis?

  • Lysine
  • Aspartic acid
  • Histidine (correct)
  • Tyrosine

The pKa of the alpha-amino group of an amino acid is significantly lower than the pKa of its alpha-carboxyl group.

False (B)

What is the approximate pKa of the guanidino group in arginine?

~12

The pKa of the side chain of cysteine (Cys-SH) falls in the range of _ to 11 in proteins.

<p>8</p> Signup and view all the answers

Match the amino acid residue with its approximate pKa range in proteins:

<p>Aspartic acid (Asp) = 2-5.5 Lysine (Lys) = ~10 Tyrosine (Tyr) = 9-12 Histidine (His) = 5-8</p> Signup and view all the answers

Which of the following ionizable groups has the lowest pKa value?

<p>Asp (CO2H) (B)</p> Signup and view all the answers

The pKa values of ionizing groups are identical in model compounds and within the protein environment.

<p>False (B)</p> Signup and view all the answers

What amino acid possesses an imidazole group?

<p>Histidine</p> Signup and view all the answers

The side chain of _ has a pKa around 10.4 in model compounds.

<p>Lysine</p> Signup and view all the answers

Match each amino acid with its corresponding functional group:

<p>Aspartic Acid = Carboxyl (CO2H) Lysine = epsilon-amino (-NH2) Tyrosine = Hydroxyl (OH) Arginine = Guanidine</p> Signup and view all the answers

How does the microenvironment influence the pKa of an ionizable group within a protein?

<p>It can either increase or decrease the pKa. (A)</p> Signup and view all the answers

Arginine is typically negatively charged at physiological pH.

<p>False (B)</p> Signup and view all the answers

What is the approximate pKa of the alpha-carboxyl group in model compounds of amino acids?

<p>3.6</p> Signup and view all the answers

The pKa of the hydroxyl group in _ can range from 9 to 12 within proteins.

<p>Tyrosine</p> Signup and view all the answers

Match each amino acid with its approximate pKa in a small peptide:

<p>Glutamic Acid = 4.5 Histidine = 6.4 Lysine = 10.4 Cysteine = 9.1</p> Signup and view all the answers

Which amino acid contains a thiol group, which can form disulfide bonds?

<p>Cysteine (A)</p> Signup and view all the answers

The pKa of phosphates is consistent within a protein.

<p>False (B)</p> Signup and view all the answers

What range of pKa values is typical for histidine residues in proteins?

<p>5-8</p> Signup and view all the answers

In model compounds, the pKa of the alpha-amino group of an amino acid is approximately _ .

<p>7.8</p> Signup and view all the answers

Match each amino acid with its listed pKa:

<p>amino acid alpha - CO2H = 3.6 amino acid alpha - NH2 = 7.8 Lys (e-NH2) = 10.4 Arg (guanidine) = ~12</p> Signup and view all the answers

Which amino acid residue is commonly targeted by ubiquitination?

<p>Lysine (Lys) (D)</p> Signup and view all the answers

Phosphorylation involves the addition of a phosphate group to a protein, typically from an ATP molecule.

<p>True (A)</p> Signup and view all the answers

What molecule donates the acetyl group during acetylation?

<p>Acetyl-CoA</p> Signup and view all the answers

The process of adding a myristoyl group to a protein is known as __________.

<p>myristoylation</p> Signup and view all the answers

Match the following covalent modifications with the amino acid residues they commonly target:

<p>Ubiquitination = Lysine (Lys) Phosphorylation = Tyrosine (Tyr), Serine (Ser), Threonine (Thr), Histidine (His) Acetylation = Lysine (Lys), α-amino (amino terminus) Adenylylation = Tyrosine (Tyr)</p> Signup and view all the answers

Which enzyme is responsible for activating ubiquitin in the ubiquitination process?

<p>E2 (B)</p> Signup and view all the answers

Methylation always leads to the activation of the target enzyme.

<p>False (B)</p> Signup and view all the answers

What is the precursor molecule that provides the adenosine monophosphate (AMP) group in adenylylation reactions?

<p>ATP</p> Signup and view all the answers

Which of the following modifications involves the transfer of a fatty acid?

<p>Myristoylation (B)</p> Signup and view all the answers

Covalent modifications are always irreversible.

<p>False (B)</p> Signup and view all the answers

What is the amino acid that is modified during methylation?

<p>Glutamate</p> Signup and view all the answers

Which molecule is released during the acetylation of a protein?

<p>HS-CoA (D)</p> Signup and view all the answers

ADP-ribosylation always leads to enzyme inactivation.

<p>False (B)</p> Signup and view all the answers

Which of the following amino acids can be targeted by phosphorylation?

<p>Tyrosine (B)</p> Signup and view all the answers

Adenylylation involves the addition of an AMP moiety to a tyrosine residue.

<p>True (A)</p> Signup and view all the answers

Flashcards

pKa of Amino Acid α-COOH (model compounds)

The pKa of the amino acid alpha-carboxyl group in model compounds (small peptides) is around 3.6.

pKa of Asp (CO2H)

The pKa of Aspartic acid (CO2H) is around 4.0 in model compounds (small peptides), while the usual range in proteins is 2-5.5.

pKa of Glu (CO2H)

The pKa of Glutamic acid (CO2H) is around 4.5 in model compounds (small peptides), while the usual range in proteins is 2-5.5.

pKa of His (imidazole)

The pKa of Histidine (imidazole) is around 6.4 in model compounds (small peptides), while the usual range in proteins is 5-8.

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pKa of Amino Acid α-NH2

The pKa of the amino acid alpha-amino group is around 7.8 in model compounds (small peptides), while it's approximately 8 in proteins.

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pKa of Lys (ε-NH2)

The pKa of Lysine (ε-NH2) is around 10.4 in model compounds (small peptides), while it's approximately 10 in proteins.

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pKa of Arg (guanidine)

The pKa of Arginine (guanidine) is approximately 12 in model compounds (small peptides).

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pKa of Tyr (OH)

The pKa of Tyrosine (OH) is 9.7 in model compounds (small peptides), with a usual range of 9-12 in proteins.

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pKa of Cys (SH)

The pKa of Cysteine (SH) is 9.1 in model compounds (small peptides), with a usual range of 8-11 in proteins.

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Ubiquitination

The process of attaching ubiquitin to a protein, often targeting it for degradation.

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Phosphorylation

The addition of a phosphate group to a protein, commonly affecting enzyme activity.

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ADP-ribosylation

The transfer of an ADP-ribose moiety to a protein.

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Adenylylation

The transfer of an adenylyl group to a protein.

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Methylation

The addition of a methyl group to a protein.

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Acetylation

The addition of an acetyl group to a protein.

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Myristoylation

The addition of a myristoyl group to a protein.

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Study Notes

  • Some enzymes are regulated by reversible covalent modification

Types of Reversible Covalent Modification:

  • Ubiquitination (Lys):

    • Ubiquitin activation occurs with the help of HS-E2.
    • Activated ubiquitin forms.
    • Activated ubiquitin and HS-E2 interact with an enzyme.
  • Phosphorylation (Tyr, Ser, Thr, His):

    • ATP converts to ADP.
    • An enzyme gets phosphorylated.
  • Adenylylation (Tyr):

    • ATP converts to PPi.
    • An enzyme undergoes adenylylation, incorporating an adenosine group.
  • Acetylation (Lys, α-amino (amino terminus)):

    • Acetyl-CoA converts to HS-CoA.
    • An enzyme gets acetylated.
  • Myristoylation (α-amino (amino terminus)):

    • Myristoyl-CoA converts to HS-CoA.
    • An enzyme gets myristoylated.
  • ADP-ribosylation (Arg, Gln, Cys, diphthamide—a modified His):

    • NAD converts to nicotinamide.
    • An enzyme undergoes ADP-ribosylation.
  • Methylation (Glu):

    • S-adenosylmethionine converts to S-adenosylhomocysteine.
    • An enzyme gets methylated.

pKa Values of Ionizing Groups

  • Model compounds like small peptides and proteins have different pKa values for their ionizable groups.

Amino Acid pKa Values

  • Amino acid α-COOH has a pKa of 3.6 in model compounds and a usual range of 2-5.5 in proteins.
  • Asp (CO2H) has a pKa of 4.0 in model compounds and a usual range of 2-5.5 in proteins.
  • Glu (CO2H) has a pKa of 4.5 in model compounds and a usual range of 2-5.5 in proteins.
  • His (imidazole) has a pKa of 6.4 in model compounds and a usual range of 5-8 in proteins.
  • Amino acid α-NH2 has a pKa of 7.8 in model compounds and a usual value of ~8 in proteins.
  • Lys (ε-NH2) has a pKa of 10.4 in model compounds and a general value of ~10 in proteins.
  • Arg (guanidine) has a pKa of ~12 in model compounds. There is no usual range provided for proteins.
  • Tyr (OH) has a pKa of 9.7 in model compounds and a usual range of 9-12 in proteins.
  • Cys (SH) has a pKa of 9.1 in model compounds and a usual range of 8-11 in proteins.
  • Phosphates have pKas of 1.3 and 6.5 in model compounds. There is no usual range provided for proteins.

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