Conservative Amino Acid Substations in Proteins Flashcards

1
Q

How we use our knowledge of amino acid structure in genetics

A
  • important in genomic sequencing an analysis

- function and evolution of proteins due to comparative sequences of nucleic acids to deduce sequences of proteins.

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2
Q

Conservative

A

unlikely to result in major change of the characteristics of a protein.

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3
Q

Acidic R group conservations

A
  • Asp (D) and Glu (E)
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4
Q

Basic R group conservations

A
  • Lys (K), Arg (R), and His (H)
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5
Q

Hydrophobic R group conservations

A
  • Leu (L), Ile (I), Val (V)

- about the same size

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6
Q

Amide R group conservations

A
  • Asn (N) and Gln (Q)
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7
Q

Aromatic group conservations

A
  • Phe (F), Tyr (Y), and Trp (W)
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8
Q

Conservation on a genetic basis

A
  • Many (but not all) amino substations that are conservative on a structural basis and also conservative on a genetic basis.
  • They can result from the change of a single nucleotide in the third position of the codon.
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9
Q

Conservation on a genetic basis example

A
  • Asp (D) GA U/C

- Glu (E) GA A/G

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10
Q

Aligning conserved sequences

A
  • clone
  • sequence
  • BLAST
  • align with CLUSTAL
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11
Q

BLAST

A
  • find homology of protein

- determine hypothetical gene or actual gene

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12
Q

DNA polymerases

A
  • proofread
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13
Q

Taq polymerases

A
  • makes more mistakes

- fidelity

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14
Q

conservative substations on the frequency of substitution basis

A
  • if one AA substitutes for another at a frequency higher than expected by chance = conservative
  • determined statistically
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15
Q

BLAST

A

peptide or nucleic acid sequence and want to find what known proteins or nucleic acids have the sequence or related sequences.

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16
Q

CLUSTAL

A
  • 2 or more proteins or nucleic acid sequences and you want to align them with the best fit.
17
Q

strongly conserved versus structurally conserved substitutions

A
  • are the same but 5 additional indications of homology in weakly conserved substitutions
18
Q

Effect of non-conservative amino acid substitutions

A
  • Normal erythrocytes versus sickle-cell anemia erythrocytes
  • a homozygous mutation that changes Glutamic Acid (a very hydrophilic amino acid) to Valine (a very hydrophobic amino acid)