Chapter 3 Flashcards

(57 cards)

1
Q

All amino acids have…

A

an alpha-carbon and four substituents

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2
Q

What is an alpha-carbon?

A

a chiral center when all four substituents are different

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3
Q

The spatial distribution of individual amino acids is…

A

tetrahedral

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4
Q

What distinguishes one amino acid from the other?

A

the chemical nature of the R group

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5
Q

What amino acid is the only one that is achiral?

A

Glycine (G)

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6
Q

What two amino acids contain two chiral centers?

A

Isoleucine (I) and Threonine (T)

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7
Q

When do pKa values of amino acids change?

A

polymerization

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8
Q

What are enantiomers?

A

mirror images of each other

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9
Q

The D and L system is used to…

A

indicate amino acid absolute configuration

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10
Q

What amino acids are predominant in nature?

A

L-amino acids

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11
Q

For nonpolar amino acids R groups are subject to the…

A

hydrophobic effect in proteins

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12
Q

What are the essential amino acids for nonpolarR groups?

A

V, I, M and L

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13
Q

for aromatic R groups what are the essentials?

A

F and W

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14
Q

For polar, uncharged R groups what can they form?

A

hydrogen bonds

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15
Q

Cysteine can form…

A

disulfide bonds

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16
Q

What is the essential R groups for polar, uncharged?

A

T

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17
Q

What are the essential amino acids for positively charged R groups?

A

K and H

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18
Q

For negatively charged R groups both have a net negative charge at what pH?

A

7.0

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19
Q

Pro and Lys are common in…

A

collagen and aid in protein structure stability

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20
Q

Four Lys form…

A

Desmosine, a component of elastin

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21
Q

Glu is carboxylated in pro-thrombin to produce…

A

thrombin

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22
Q

What is Zwitterion?

A

dipolar ion

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23
Q

What is the isoelectric point (pI)?

A

The pH at which the net electric charge is zero

24
Q

For a molecule with only two functional groups the Zwitterion is found…

A

between the two pKa values

25
What is the equation for finding the pI?
pI=pKa1+pKa2/2
26
For these amino acids when the pH=pI then the net charge of the amino acid is
zero
27
When pH > pI =
net negative charge
28
When pH < pI =
net positive charge
29
What is a peptide bond?
covalent formed through condensation broken through hydrolysis
30
What is a dipeptide?
2 amino acids, 1 peptide bond
31
What is a tripeptide?
3 amino acids, 2 peptide bonds
32
What is an oligopeptide?
a few amino acids
33
What is a polypeptide?
many amino acids
34
What is a protein made up of?
thousands of amino acids
35
How do you read the sequence of amino acids?
numbering starts from the amino-terminal residue (N- terminal)
36
What is a multisubunit protein?
2+ polypeptides associated noncovalently
37
What is an oligomeric protein?
at least 2 identical subunits
38
What are identical units called?
protomers
39
What are conjugated proteins?
contain permanetly associated chemical components
40
What is the non-amino acids part of the protein
prosthetic group
41
What are lipoproteins?
contain lipids
42
What are glycoproteins?
contain sugars
43
What are metalloproteins?
contain specific metals
44
How does ion-exchange chromatography seperate?
based on sign and magnitude of the net electric charge
45
pH and concentration of free salt ions affect...
protein affinity
46
What bound charged groups does ion-exchange chromatography use?
cation exchangers and anion exchangers
47
What is another name for size-exclusion chromatography?
gel filtration chromatography
48
How does size-exclusion chromatography separate?
based on size
49
In size-exclusion chromatography which proteins emerge first?
large proteins emerge from the column before small proteins do
50
How does affinity chromatography seperate?
seperates based on binding affinity
51
In affinity chromatography, it is eluted by...
high concentration of salt or ligand
52
What is electrophoresis?
visualize and characterize purifed proteins
53
What does electrophoresis use?
cross-linked polymer polyacrylamide gels
54
Electrophoresis proteins migrate based on...
charge-to-mass ratio
55
What is visualization?
coomassie blue dye binds to proteins
56
What does sodium dodecyl do?
it binds and partially unfolds proteins
57
electrophoresis in the presence of SDS separates by...
molecular weight