CH461/561
BIOCHEMISTRY I
Fall 2006

NOTE: This will change during the course of the semester.

Date

Day

Chapter/Exams/etc.

 

23-Aug

Wednesday

Read Chapters 1-2

Introduction, Syllabus, Student Information Forms

Chapter 1. Foundations of Biochemistry

25-Aug

Friday

review thermodynamics

28-Aug

Monday

Chapter 2. Water
forces in biochemistry

 

30-Aug

Wednesday

Dissociation of water, pH buffers

Chapter 3. Amino Acids, Peptides, & Proteins
ionization, chirality

1-Sep

Friday

Instructor at Auburn (no class)
(get it?  No class?  never mind·)

4-Sep

Monday

Labor Day (still no class)

5-Sep

Tuesday

6:30PM: Review session (SHLB150)

6-Sep

Wednesday

Your friends the Amino Acids:
properties, calculating pI, etc.

The peptide bond: Making & breaking
Reactions with amino acids

8-Sep

Friday

Reactions with amino acids,
Sequencing of polypeptides

Decide on review session for next week

11-Sep

Monday

Synthesis of peptides
Working with proteins: principles of purification

12-Sep

Tuesday

6:30PM: Review session (SHLB150)

13-Sep

Wednesday

Analytical methods
New tricks for purifying proteins

 

15-Sep

Friday

Finish up proteins

review for exam

17-Sep

Sunday

5:00PM: Review session (SHLB150)

18-Sep

Monday

Chapter 7. Carbohydrates (all but section 7.4)
Aldose & ketose family trees

19-Sep

Tuesday

6:30PM Exam #1 (chapters 1-3)
(you may stay until 8:30PM)

20-Sep

Wednesday

More on carbo's: cyclization, mutarotation, conformations, reactions

22-Sep

Friday

Glycosides, disaccharides, & polysaccharides

25-Sep

Monday

Solving polysaccharide structure

Chapter 8. Nucleotides & nucleic acids
(all but section 8.4)
Chapter 24: Genes & chromosomes

DNA structure

26-Sep

Tuesday

6:30PM: Exam #1 returned & reviewed

27-Sep

Wednesday

Forms of DNA, supercoiling

 

29-Sep

Friday

Chromatin structure, DNA as genetic material

Chapter 9. DNA-based information technologies (sections 9.1 & 9.2 only)

2-Oct

Monday

Transformation & molecular cloning methods

3-Oct

Tuesday

6:30PM: Review session (SHLB150)

4-Oct

Wednesday

Finish up molecular cloning methods

Chapter 10. Lipids (all but section 10.3)
fatty acids

Fats, phospholipids, glycolipids, sphingolipids, & sterols

 

6-Oct

Friday

Chapter 11. Membranes (sections 11.1 & 11.2 only)

Membranes & membrane proteins

8-Oct

Sunday

5:00PM: Review session (SHLB150)

 

9-Oct

Monday

Finish up membranes: deviations from uniformity

Review for exam #2

10-Oct

Tuesday

6:30PM  EXAM #2 (chapters 7-11, 24)
(you may stay until 8:30PM)

 

11-Oct

Wednesday

Chapter 4. 3D Structure of Proteins
Anfinsen's experiments, Ramachandran plots

Alpha-helices, beta-sheets, beta-turns, fibrous proteins

13-Oct

Friday

Globular proteins & structural motifs

16-Oct

Monday

Globular proteins & structural motifs (cont'd)
Quaternary structure, protein folding

17-Oct

Tuesday

6:30PM: Exam #2 returned & reviewed

18-Oct

Wednesday

membrane proteins

Chapter 5. Function of Proteins
Myoglobin & Hemoglobin

20-Oct

Friday

Mid-semester study break (no lecture)

23-Oct

Monday

Globins: binding, & allostery

24-Oct

Tuesday

6:30 PM: RasMol training session (GP 152)

25-Oct

Wednesday

antibodies and the immune system

27-Oct

Friday

Finish up protein structure/function

Chapter 6. Enzymes
the basics of how enzymes work

30-Oct

Monday

No lecture  (instructor at conference)

1-Nov

Wednesday

chemical kinetics, analysis of enzyme kinetics

6:30 PM: RasMol training session (GP 152)

3-Nov

Friday

More complicated analyses: 2 substrates

6-Nov

Monday

More complicated analyses: inhibition

7-Nov

Tuesday

First half of take-home exam posted
(EXAM #3 covers chapters 4 - 6+)

6:30PM: review session

8-Nov

Wednesday


Enzyme mechanisms: Serine proteases, metalloproteases

10-Nov

Friday

Enzyme mechanisms: triosephosphate isomerase
enolase, lactate DH, catalytic antibodies

13-Nov

Monday

Regulation of enzymes: Covalent modifications

14-Nov

Tuesday

Second half of take-home exam posted
(EXAM #3 covers chapters 4 - 6+)

6:30PM: review session

15-Nov

Wednesday

Regulation of enzymes: allosteric control
Aspartate transcarbamylase as an example

 

17-Nov

Friday

Phosphofructokinase

Take-home exam

20-Nov

Monday

Chapter 13. Principles of Bioenergetics

Principles of Biochemical Pathways & Homeostasis
Overview of Glycolysis

 Chapter 14. Glycolysis (sections 14.1-14.4)

21-Nov

Tuesday

6:30PM: review session (SHLB 150)

22-Nov

Wednesday

No lecture (Thanksgiving break)

24-Nov

Friday

No lecture (Thanksgiving break)

27-Nov

Monday

Reactions of glycolysis

28-Nov

Tuesday

6:45PM:  Last-minute, last-ditch review for the truly desperate

 

 

29-Nov

Wednesday

Finish glycolysis

Chapter 15. Principles of metabolic regulation
(sections 15.1-15.3)

Fermentation, alternate carbohydrates
Glycogenolysis & glycogen synthesis

Take-home exam due before 4PM.
(see instructions)

 

1-Dec

Friday

Gluconeogenesis

Course evaluations (bring a pencil!)

 

4-Dec

Monday

Chapter 16. TCA cycle (sections 16.1-16.3)
Pyruvate dehydrogenase and 5 essential vitamins
 Overview of the TCA cycle

5-Dec

Tuesday

6:30PM: review session (SHLB 150

6-Dec

Wednesday

Reactions of the TCA cycle
fate of the carbons & NADH

 

8-Dec

Friday

Take-home exam returned

Anaplerotic reactions
Regulation of glycolysis/gluconeogenesis & TCA

Review for final

10-Dec

Sunday

4:30PM : review session for final exam

13-Dec

Wednesday

Final Exam (8:00 - 10:30 AM)
(Those who wish may remain until 11:30.)

 

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