BICH 410 Fall 2016 Assignment 1

100 points Due at the beginning of Class, Friday, Sept. 9th

NOTE: Every graded assignment requires a cover page. The purpose of the cover page is to
enable you to reclaim your assignment once it has been graded. Do not include any personal
information such as social security numbers or UINs on the cover sheet. The cover sheet should
be stapled to your complete assignment. Be sure to have your name and section number on
your cover page.
Be sure to clearly show your work, simply supplying the answers results in zero points.
Be sure to clearly circle your final answers.
Be sure to state your units. Answers without units are marked completely wrong and
receive no partial credit.
Do your own work. These problem sets are composed of old exam questions. you need to
be able to work these problems by yourself without the aid of friends, textbooks or
notes.
Note: paying a tutoring service to provide answers for these problem sets is
cheating. Note: Copying other students work is also cheating.
Problem Sets must be turned in before class on the due dates. NO LATE
HOMEWORK WILL BE ACCEPTED FOR ANY REASON.
All problem sets must be stapled together.
All problem sets must have problems in numerical order. Problem Sets with the problems
out of sequence will get a zero.

(A) (5pts) Turn in 4 blank Scantrons , gray & white, 8 x 11 in., 150 question, Form # 0101607-TAMU. Do not write on, bubble in, fold, mutilate or staple.

BICH 410 Fall 2016 Assignment 1

Name

100 points Due at the beginning of Class, Friday, Sept. 9th

Section_______Signature

(B) Acid/Base Chemistry

1.) ( 2 pts) Which of the following molecules would have a zero net dipole moment? Explain
your answer.
F

F
C

CO2

C
H

SH2

NH3

H3 C

C
CH3 F

H 3C

C
F F
F

Cl

H
F

Cl

CH 3

2.) ( 2 pts) Classify the above molecules as polar or nonpolar? Explain your answers.

3.) (2 pts) What is the pH and pOH of a solution containing 0.0014 M NaOH?

4.) (2 pts) What is the pH and pOH of a solution containing 0.000175 M HCl

5.) (2 pts) The pOH of household ammonia is 1.40, calculate the hydrogen ion and hydroxide
ion concentrations.

6.) (2 pts ) The pH of tomato juice is around 4.43. Calculate the hydrogen ion and hydroxide
ion concentrations.

7.) ( 3 pt) H2PO4-1 has a pKa of 6.86. If the concentration of H2PO4-1 is 0.362 mM and the
concentration of H1PO4-2 is 0.128 mM what is the pH of the solution?

8.) ( 3 pts) Calculate the pH resulting from mixing 200 millimeters of 0.15 M acetic acid with
100 milliliters of 0.45 M sodium acetate. The pKa of acetic acid is 4.76.
pH = _______________.

BICH 410 Fall 2016 Assignment 1 100 points Due at the beginning of Class, Friday, Sept. 9th
9.) ( 3 pts) Calculate the ratio of the concentration of acetate and acetic acid required in a buffer
system of pH 5.0. The pKa of acetic acid is 4.76. Ratio = ________________.

10.) ( 3 pt) A solution is buffered at a pH of 5.50 by a weak acid and its conjugate base. The
concentration of a weak acid is 1.332 mM and the concentration of the conjugate base equals
0.667 mM. What is the pKa of this weak acid?

11.)(3 pts) The pKa of phenol shown below is 10.00. At what pH is phenol 2/5 ionized?

12.) (3 pts) The pKa of the ammonium ion shown below is 9.25. At what pH is ammonia 65 %
ionized?
H
H

N
H

H
H

13.) ( 5 pts) What is the pH of a solution 0f 0.35M formic acid. The pKa of formic acid is 3.75.
(hint you do some algebra and use the quadratic equation. )

BICH 410 Fall 2016 Assignment 1

(C) Thermodynamics

100 points Due at the beginning of Class, Friday, Sept. 9th

1.) Use the following information. A protein going from the completely unfolded random state
to its native folded state has the following thermodynamic parameters: H =
kJ/mol and
S=
kJ/mol K.
a.) ( 2 pts) Based on the information given above, Which of the following statements regarding
this folding process are correct?_______________________________________
(A) Endergonic.
(B) Exergonic.
(C) Exothermic.
(D) Endothermic.
(E) Enthalpically driven.
(F) Entropically driven.
(G) Enthalpically opposed.
(H) Entropically opposed.
(I) At equilibrium.
(J) Exergonic at all temperatures
(K) Endergonic at all temperatures
b.) ( 2 pts) At 25 oC, calculate the free energy change for the protein going from the completely
unfolded random state to its native folded state.

c.) ( 2 pts) At what temperature does this process become exergonic?

d.) ( 2 pts) At what temperature does this process become endergonic?

e.) (1pt) At what temperature is the process at equilibrium?

2.) ( 3 pts) Given the following reaction enthalpies:

H = 436 kJ/mol
H22H
O22O
H = 495 kJ/mol
2H2 + O2 2H2O
H = 484 kJ/mol
Calculate H for the following reaction:
2H2O 4H + 2O

BICH 410 Fall 2016 Assignment 1 100 points Due at the beginning of Class, Friday, Sept. 9th
3.) Consider the following reaction catalyzed by phosphoribose mutase at 37 oC.
Ribose 5-Phosphate

Ribose 1-Phosphate

(a) ( 2 pts) At equilibrium, the ratio of Ribose 5-Phosphate / Ribose 1-Phosphate = 3.4500.
Calculate Keq and Gofor the above reaction as written above.

(b) ( 1 pt) Would the reaction proceed as written under standard conditions?_______________
(c) (3 pts) If you started with 1 mM of Ribose 1-phosphate and 1 mM of Ribose 5-phosphate,
what would be the equilibrium concentrations of Ribose 1-phosphate and Ribose 5-phosphate?

(d) ( 2 pts) The physiological concentration of Ribose 5-phosphate is 3.419 mM and the
physiological concentration of Ribose 1-phosphate is 0.440 mM. Calculate G.

(e) ( 1 pt)Which direction would the reaction proceed as written under physiological conditions?
______________________________
4.) Calculate the Equilibrium constants for the following reactions at 37 oC:
(a) (1 pt) 2 Pi Pyrophosphate + H2O
Go = 3.60 kJ/mol
(b) (1 pt) Fumarate + NADH + H+ Succinate + NAD +

Go = 67.74 kJ/mol

(c) ( 1 pt) Phosphoenolpyruvate + H2O 2-Phosphoglycerate

Go = 1.88 kJ/mol

(d) ( 2 pts) Fructose 1,6-bisphosphate + H2O Fructose 6-phosphate + Pi + H+

[H+]eq = 10-7 M,
[Fructose 6-phosphate]eq = 4.9998 mM, [Pi]eq = 8.7300 mM,
[Fructose 1,6-Bisphosphate]eq = 1.8475 mM, [H2O]eq = 55.6 M
5.) Calculate the Go for the following reactions at 37 oC.
(a) (1 pt) Lactates + 2 H+ Glucose
Keq = 6.67 X 10-34
(b) (1 pt) Malate

Fumarate + H2O

Keq = 0.263

(c) (1 pt) Oxaloacetate + NADH + H+ Malate + NAD+ Keq = 103,734.44

(d) (2 pts) Fructose + Pi + H+ Fructose 6-phosphate + H2O
[Fructose 6-phosphate]eq = 0.06807 M, [H2O]eq = 55.6 M, [H+]eq = 10-7M,
[Fructose]eq = 4.30000 mM, [Pi]eq = 8.83000 mM

BICH 410 Fall 2016 Assignment 1 100 points Due at the beginning of Class, Friday, Sept. 9th
6.) (6 pts) Consider the following reaction:
Mannose 6-phosphate + H2O Mannose + Pi + H+
The above reaction was started with the following initial concentrations of:
Mannose 6-phosphate of 0.20 mM, H2O = 55.6 M, Mannose = 0.01 mM, Pi = 0.01 mM and
H+ = 10-7M.
The reaction was allowed to proceed until equilibrium was reached at 25 oC generating
equilibrium concentrations of:
Mannose 6-Phosphate of 1.59 X 10-10 M, H2O = 55.6 M, Mannose = 0.2099 mM, Pi = 0.2099mM
and H+ = 10-7M.
Calculate Keq, Go and G.

7.) Given:
ADP + H2O

AMP + Pi + H+

Go = 35.7 kJ/mol

ATP + H2O

ADP + Pi + H+

Go = 30.5 kJ/mol

(a) (3 pts) Creatine kinase is a muscle tissue enzyme that catalyzes the reaction shown below.
What is the Go and Keq for the creatine kinase reaction( T = 37o C,)?
AMP + ATP

2ADP

(b) ( 3 pts) The steady state concentrations in severely fatigued muscle cell are:
[ATP] = 4.44 mM
[AMP] = 232.00 M [ADP] = 0.63 mM
Calculate G for the reaction under these cellular conditions (T= 310 K):
AMP + ATP

2ADP

(c) ( 3 pts) The steady state concentrations rested muscle cell are:
[ATP] = 5.27 mM
[AMP] = 12.00 M [ADP] = 0.020 mM
Calculate G for the reaction under these cellular conditions (T= 310 K):
AMP + ATP

2ADP

8.) Consider the standard free energies shown below(T =37 C, R=8.3145 J/mole K) :

BICH 410 Fall 2016 Assignment 1 100 points Due at the beginning of Class, Friday, Sept. 9th
UDP-Mannose + H2O Mannose 1-phosphate + UMP + 2H+
G ' = 34.9 kJ/mol
+
UTP + H2O UMP + PPi + 2H
G ' = 32.5 kJ/mol
PPi + H2O 2Pi
G ' = 33.6 kJ/mol
(A) ( 2 pts) Calculate G ' & Keq for the following reaction.
Mannose 1-phosphate + UTP + H2O UDP-mannose + 2Pi

(B) ( 2 pts) Which of the following statements best describe this reaction?
(A) The reaction is irreversible under standard conditions.
(B) The reaction is reversible under standard conditions.
(C) The reaction is at equilibrium under intracellular conditions.
(D) The reaction is reversible under intracellular conditions.
(E) Keq = 0
(C) (2 pts) This reaction is catalyzed by phosphomannose pyrophosphorylase. How would this
enzyme effect G ' and Keq?

(D) ( 3 pts) The physiological concentration of these three metabolites in a mammalian cell at
physiological temperature ( 37 C) are:
[UDP-mannose] = 2.130 mM; [UMP] = 0.140 mM , [H2O ] = 55.6 M, [H+] = 10-7 M and
[mannose 1-phosphate] = 4.33 mM
[UTP] = 5.35 mM; [Pi] = 8.90 mM [PPi] = 8.14 M
What would be the actual free energy change ( G) for the reaction under these cellular
conditions?
Mannose 1-phosphate + UTP + H2O UDP-mannose + 2Pi

BICH 410 Fall 2016 Assignment 1 100 points Due at the beginning of Class, Friday, Sept. 9th
9.) Use the following information.
2-Phosphoglycerate
3-Phosphoglycerate
Phosphoglycerate Mutase
Keq =2.00
2-Phosphoglycerate
Enolase
ADP + PEP + H+
Pyruvate Kinase
Pyruvate + ATP + H2O

Phosphoenolpyruvate (PEP) + H2O

Go = 1.9 kJ/mol
ATP + Pyruvate
Go = 33.3 kJ/mol
3-Phosphoglycerate + ADP + H+

(a) ( 2 pts) From the above information, calculate the Keq and Go for the overall reaction
shown below the line, T = 37oC.

(b)( 3 pts) Use your data from the previous question to calculate the G given he cellular
concentrations of reactants and products below.
Pyruvate + ATP + H2O
3-Phosphoglycerate + ADP + H+
o
T = 37 C.
[Pyruvate] = 3.015 mM
[3-Phosphoglycerate] = 53.05 M
[ADP] = 0.14 mM
[ATP] =5.85 mM
[H+] = 10-7 M
[H2O] = 55.6 M