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Week #
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M
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W
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F
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1
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-
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Class 1) 9/7
Introduction
Biomolecules
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Class 2) 9/9
VVP: Chapter 1
NOTE: Red assignments specify source of your study
questions!
Life
-- Organelles: What goes on in them?
-- Thermodynamics and the rubber band
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2
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3) 9/12
VVP: Chapter 2
Water
QUIZ -- See Learning
Strategy for Water.
For all quizzes, see Learning
Strategy for the current
Topic.
-- How does a buffer work?
-- How does pH determine the ionization state of a
molecule?
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4) 9/14
VVP: Section 3.1,
Nucleotides and Nucleic
Acids
-- Water overflow (so to speak)
-- Nucleotide structure and nomenclature
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5) 9/16
VVP: Sections 3.2, 3
QUIZ*: See Learning Strategy for
Nucleotides and Nuclei Acids
-- Nucleic-acid structure and function
* NOTE: For this quiz, you do not have to
memorize the structures of the nucleotide bases and
sugars (you won't use them enough to warrant memorizing
them). On the quiz, I will provide the structures of needed
nucleotides and sugars, but you should know how to link them
(and phosphates) together, using the kind of instructions
you find in the sample quiz of the Learning Strategy.
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3
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6) 9/19
VVP: Section 4.1
Amino Acids
-- Amino-acid structures
-- Ionization states of amino acids and peptides.
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7) 9/21
VVP: Sections 4.2, 3
QUIZ -- See Learning Strategy for
Amino Acids
-- Polypeptides: structure and terminology
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8) 9/23
VVP: Sections 5.1, 2, and Section
3.4B
Proteins: Primary
Structure
-- How do you find and purify a protein?
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4
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9) 9/26
VVP: Sections 5.3, 4 (Omit Section
5.3.D)
-- How do you determine the amino-acid sequence of a
protein? Sequencing
Problem for Discussion
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10) 9/28
VVP: Chapters 1-5
(Study questions on anything in first five chapters)
-- What does sequence tell you about a protein?
-- Review for exam.
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11) 9/30
Exam #1
Room 352 Science
2 hours. You may start any time between 7:30
and 10:30 AM. Earlier by arrangement with GR. (This exam
procedure might change.)
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5
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12) 10/3
VVP: Sections 6.1, 2,3
Proteins: 3D
Structure
Discussion
-- What common structural elements are found in
proteins?
Note: Wednesday's meeting in
Luther-Bonney 20.
Please look over Deep
View Tutorial before Wednesday.
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13) 10/5
MEET IN LUTHER-BONNEY
202!!! Hands-on Workshop
with Deep View.
Come early, if you like. We have the computer classroom
from 10:00 until 11:30 AM.
Please look over Deep
View Tutorial before class.
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14) 10/7
VVP: Sections 6.4,
5
Touring typical proteins.
We'll use cytochrome b5 (PDB file 1CYO)
as an example.
Molecular Graphics Project Assignments
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6
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15) 10/10
NO CLASS
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16) 10/12
VVP: Sections 7.1, 2
Proteins:
Function
Discussion
Globins as archetypes of protein function
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17) 10/14
VVP: Sections 7.3, 4
QUIZ: See Learning Strategy for Protein
Function
Discussion
Mathematical models of oxygen transport
Supplementary
Problems on oxygen transport.
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7
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10/17
Molecular explanations of hemoglobin action, and remaining
Ch 7 details.
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18) 10/19
VVP: Section 28.5
Another examples of protein function:
antibodies.
Brief intro to carbohydrates.
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19) 10/21
VVP: Sections 8.1,2,3
Carbohydrates
QUIZ: See Learning Strategy for
Carbohydrates
Modeling Project Due by 12:00
noon.
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8
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20) 10/24
VVP: Sections 9.1,2
Lipids
QUIZ: See Learning Strategy for
Lipids.
Lipid assembly & chemistry
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21) 10/26
VVP: Section 9.3
Membrane composition and properties
Review for Exam #2.
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22) 10/28
Exam #2
Room 352 Science
Coverage: Through
Chapter 9.
2 hours. You may start any time between 7:30
and 10:30 AM. Earlier by arrangement with GR.
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9
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23) 10/31
VVP: Section 9.4A, omit 4B, read
4C, read only intros and first secctions of 4D, 4E; 10.1,2,3
(in 2C, read only intro and first section)
Cell membranes, membrane proteins, membrane
transport.
Click HERE
for improved version of Figure 10-21.
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24) 11/2
VVP: Sections 11.1,2,3
Basics of enzyme action.
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25) 11/4
VVP: Sections
11.4,5
Archetypes of enzyme action
I: lysozyme
II: serine proteases
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10
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26) 11/7
Enzyme Kinetics
VVP: Sections
12.1
QUIZ: See Learning Strategy for Enzymes
(under Enzyme Kinetics)
Mathematical models of enzyme action.
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27) 11/9
Physical meanings of Km, Vmax, and
kcat.
See this:
Kinetics Problems
for Discussion
OPTIONAL: You can hand in solution to kinetics
question #1 as a free 10-point quiz (can help quiz
average, can't hurt it.) Accepted today only.
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28) 11/11
NO CLASS
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11
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29) 11/14
VVP: Sections
12.2-4
Models of inhibition and regulation
OPTIONAL: You can hand in solution to kinetics
question #2 as a free 10-point quiz (can help quiz
average, can't hurt it.) Accepted today only.
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30) 11/16
Intro to Metabolism
VVP: Section
13.1
Overview of metabolism
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31) 11/18
VVP: Sections 13.2, 3A, 4
(section B and C later,
with chapter 17)
High-energy compounds, coupled reactions,
studying metabolism
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12
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32) 11/21 Exam #3
Room 352 Science
2 hours. You may start any time between 7:30
and 10:30 AM. Earlier by arrangement with GR.
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33) 11/23
NO CLASS
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34) 11/25
NO CLASS
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13
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35) 11/28
Carbohydrate Metabolism I
VVP: Sections
14.1,2
QUIZ: See Learning Strategy for
Glycolysis.
Reactions of glycolysis
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11/30
VVP: Sections 14.3,4
Fates of pyruvate, regulation of glycolysis.
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12/2
VVP: Section 14.5
Catabolism of other sugars
Note: Skip Section 14.6 and
Chapter 15; covered second semester.
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14
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36) 12/5
Citric Acid Cycle
VVP: Sections
16.1,2
QUIZ: See Learning Strategy for TCA
cycle.
Overview and pyruvate dehydrogenase
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37) 12/7
VVP: Section 16.3
Reactions of TCA cycle.
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38) 12/9
VVP: Section
16.4,5
Regulation of TCA cycle; connections to other
pathways
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15
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39) 12/12
Electron Transport and Oxidative
Phosphorylation
VVP: Sections
17.1,2
QUIZ: See Learning Strategy for ET&OP
Electron transport
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40) 12/14
VVP: Section 17.3
Oxidative phosphorylation
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41) 12/16
VVP: Section 17.4
Regulation of respiration
Overview of final exam.
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-
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12/19
Final Exam
Official Exam Time is 10:45-12:45 AM
You may start any time
between 7:30 and 10:45 AM. Earlier by
arrangement with GR. Time limit:
2 hours.
Come to Science
352.
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Final Exam content
(approximately)
60% new material
40% course survey.
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