CHEM 3511

September 17, 2009

Name ~'f _ 1B

Prof. S.w. May

Exam #1 version B

1. (10 points) A solution is made by mixing 40.0 mL of 1.00 M K2HP04 and 60.0 mL of
1.00 M KH2P04. The solution is then diluted to a final volume of 250.0 mL. Calculate
the pH of the final solution. Note: use pK = 6.82 in your calculation. You must show
your work (equa.tion, se:-up and final answer) for credit. __ ~\o.-. L \ M _. . 4
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2. (10 points) The nGo' for a certain reaction (at pH 7.0 and 25°C) is -12.0 kJ/mol.
Calculate Ke q for this reaction under these conditions. You must show your work
(equation, set-up and final answer) for credit. (Note: R = 8.314 J K-l mol-I).

3. (50 points)

a. The amino acids Arg, His and Leu would elute from a carboxymethyl column at pH 6
in the following order: L~" \-\\<. Ar% ~rt C\\hf\l(R,5 2rO\)\..1.A 4
eNo, l'\R"1
b. In two homologous proteins, a Y\e,,- ~o\<>-'( residue is most . likely to replace a
Phe residue as a conservative substitution, and a J\Sf residue would
replace an Asp residue at an invariant position.

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c. A set of DNA fragments made from the entire genome of an organism is called a
\r e'(\. <.f'C', L L \~'( (J'-,\:-\

d. Three differences between the structures of keratin and collagen are:

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2. \4(",>-;--", 0(- ~\~lt"" O\.R f~~h\- \-..C\.'I'ckc\ \;\\I\e (O\\C>.cu}" N\;y<) O'>.'(l::. \6\'l',.o-.~~~
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e. At physiological pH, polylysine assumes a \€I\."j,tl~ tll~\ conformation because
O~ -\\ct \It.So-.\"''\t. C,",-c,,-,<,\-ea.. ~\~ ~lO"Q~ . However, when the pH

is ·'oo-s.', (. , polylysine can form an alpha-helix.

f. The pentapeptide Gly-Ala-Asp-Glu-Lys has which charge characteristics at pH 6.5

and pH 1.0?

A. A net negative charge at pH 6.5 and a net negative charge at pH 1.0

B. A net positive charge a pH 6.5 and a net positive charge at pH 1.0

~ A net negative charge a pH 6.5 and a net positive charge at pH 1.0

D. Zero net charge at pH 6.5 and a net positive charge a pH 1.0

E. A net positive charge a pH 6.5 and a net charge at pH 1.0

g. In order to perform PCR, the following reagents must be included:

~ DNA fragment, primers flanking the region of interest, dNTPs, DNA Polymerase
b. DNA fragment, primers flanking the region of interest, dNTPs, ddNTPS, DNA

Polymerase

c. DNA fragment, one primer, dNTPs, DNA Polymerase, DNA ligase

d. DNA fragment, primers flanking the region of interest, dNTPs, DNA Ligase
e. None of the above

h. Restriction endonucleases are enzymes. Trypsin is also an enzyme. Restriction

enzymes cleave ON ~ , whereas trypsin cleaves 2'(q~~:",\ . The specificity
of trypsin is that cleavage occurs only 0,," -1\-.L \. S:J"... Q5::c; 'Ljs. 0'( Ac:~ \..J~'" '(\6\ -\o\\w~~

'01 Q'HJ\~

i. Which of the following statements about keratin is (or are) false?

-r A) Individual chains are cross-linked by disulfide bonds.
f B) The classification of keratin as "hard" or "soft" is determined by the proportion
of proline residues.
-r C) It consists of coiled-coil structures, which form dimers and then associate to
form protofilaments.
~ D) The coiled-coil structures account for the springiness of hair and wool fibers.
-r E) Its primary structure consists of a 7-residue repeat, with nonpolar residues
predominating at the first and fourth residues.

j. In about 25 words, explain how CNBr is used in protein sequencing.

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4. (49 points)
a. Draw the structure of ADP. (4)
b. Draw the complete chemical structure of pGCp (Note: this is a di-
ribonucleotide with both ends phosphorylated). (8)
c. Draw the DNA polymerase reaction ("shorthand notation" is OK). (5)
d. Draw Fischer projections for D-Ala and (2S,3R)-Ile. (10)
e. Draw the structure of Tyr-Glu-Arg-Pro in the ionic form that predominates at
pH 7.0. (12)
f. Draw the structure of Glutathione Disulfide (GSSG). (5)
g. Draw the structure of PTH-Val (this is a product from Edman degradation). (5)

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