Schedule for BB 450/550 Ecampus for Spring Term, 2016

This is the page for the ECAMPUS version of Kevin Ahern's BB 450/550 course at Oregon State University. The CLASSROOM version is different and should not be used by ECAMPUS students, nor should the ECAMPUS version be used by CLASSROOM students) The syllabus is required reading in this course and is available on Canvas and HERE. The official book used in the course is "Biochemistry" by Berg, Tymoczko, and Stryer. In my experience, anyone using any versions after 5.0 do fine. This course uses an alternative, optional FREE textbook called "Biochemistry Free and Easy" that I co-wrote with Indira Rajagopal. Version 3.0 has been released and you can download it HERE.

This course features my Wildly Popular Metabolic Melodies. You can see all of them and download them for free HERE. I also enjoy writing limericks and some of them are linked below. I hope you enjoy them. You are not responsible for knowing songs or limericks - they are just for fun. I offer many freebies at the following Web page HERE

OSU has moved to starting fall term on a Thursday. I consider that week zero. Week 1 (below) starts on September 28.

Date
Topic
Page Numbers
Relevant Problems

Week 1
Outline HERE

Figures can be downloaded in Canvas

1. Introduction/Acids & Bases
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) 3-24

Stryer (7) 1-24

Biochemistry Free and Easy (v. 3.0) - 10-23

plus HERE and HERE


Stryer (6) - Ch 1: 1, 6,8,9,10,11,12

Stryer (7) Ch 1: 1, 6,12,14,16,17.18
All problems in this column are optional and do not need to be turned in.

This column contains links to videos of me solving problems in the assignments. Failure to watch ALL of these videos before asking questions about assignments will result in a loss of points.

Week 1

2. Acids & Base
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 3-24

Stryer (7) 1-24

Biochemistry Free and Easy (v. 3.0) - 10-23

plus HERE and HERE

Ecampus Assignment #1 is below in a Word format and can also be obtained from Canvas' Assignment section in a PDF format. Solutions to this problem set MUST be submitted to the Assignments section of Canvas no later than April 11 at 11:59 p.m. U.S. Pacific time. You are responsible for getting the assignment in by this time. It is not fair to those who were timely for me to give additional time to anyone for any assignment. Consequently, requesting additional time for any assignment will result in a zero for the assignment and a reduction of points in the course.

Any common graphic format or Excel/Word format is acceptable for submission. Waiting to the last minute is a problem for students. My advice - don't wait to the last minute - technical problems sometimes happen. If Canvas receives your assignment 1 mninute late, you will not receive credit.

Videos linked on the far right column will help you to complete assignments.

Assignment #1 HERE

Problem Solving Videos for buffers/proteins HERE and HERE

Transparency Scans HERE and HERE

Week 1
Outline HERE

Figures can be downloaded in Canvas

3. Amino Acids
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 25-64

Stryer (7) 25-64

Biochemistry Free and Easy (v. 3.0) - 41-53


Stryer (6) - Ch 2: 2,3,6,8

Stryer (7) Ch 2: 2,3,4,18

Week 2

4. Protein Structure I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

(Note that the camera chip failed on the lecture, so the video here is a spliced version of an older video. It may not have everything in it covered in the highlights. You are responsible for the highlights)

Stryer (6th edition) - 25-64

Stryer (7) 25-64

Biochemistry Free and Easy (v. 3.0) - 41-53


Week 2

5. Protein Structure II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 25-64

Stryer (7) 25-64

Biochemistry Free and Easy (v. 3.0) - 41-53

A.A./Protein Charge
Problem Solving Video HERE
Transparencies HERE
Week 2
Outline HERE
Figures can be downloaded in Canvas

6. Protein Characterization I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 65-106

Stryer (7) 65-108

Biochemistry Free and Easy (v. 3.0) - 212-224

Stryer (6) - Ch. 3: 1,5,10,13,18

Stryer (7) - Ch. 3: 1,9,11,19

Practice Protein Charge Problems HERE

Withdrawals after the end of the second week of classes cannot occur after Friday of that week. See OSU Academic Regulations HERE

I do not approve petitions for dropping, withdrawal, or pass/no pass grading after any of the deadlines have passed, unless there are extraordinarily unusual circumstances. To drop a class completely (no grade), you must do so by Friday of the 2nd week of class. To withdraw from a class, you must do so no later than Friday of the 7th week.

It is your responsibility to understand the drop policy in the link above. I do not approve retroactive withdrawals from the course due to not reading the policy above.

 

 
Week 3
7. Protein Characterization II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Foxtrot HERE

Stryer (6th edition) - 65-106

Stryer (7) 65-108

Biochemistry Free and Easy (v. 3.0) - 212-224

Ecampus Assignment #2 is below in a Word format and can also be obtained from Blackbaord's Assignment section in a PDF format. Solutions to this problem set MUST be submitted to the Assignments section of Canvas no later than April 18 at 11:59 p.m. U.S. Pacific time .

Assignment #2 HERE

A.A./Protein Charge
Problem Solving Video HERE
Transparencies HERE

Week 3
Outline HERE
Figures can be downloaded in Canvas

8. Hemoglobin
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 183-204

Stryer (7) 195-218

Biochemistry Free and Easy (v. 3.0) - 53-56

Stryer (6) - Ch. 7: 3,5,

Stryer (7) Ch. 7: 9,13,14a,15

Week 3
Outline HERE
Figures can be downloaded in Canvas

9. Enzymes I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song #1 HERE
Song #2 HERE

Stryer (6th edition) 205-240

Stryer (7) 219-252

Biochemistry Free and Easy (v. 3.0) - 80-96

Stryer (6) - Ch. 8, 2ab, 4ab,

Stryer (7) - Ch. 8: 4,5,7,12,13,18,20

Week 4

10. Enzymes II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) 205-240

Stryer (7) 219-252

Biochemistry Free and Easy (v. 3.0) - 80-96

Week 4

11. Enzymes III
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Exam content boundary shown in Highlights

Stryer (6th edition) 205-240

Stryer (7) 219-252

Biochemistry Free and Easy (v. 3.0) - 80-96

Ecampus Assignment #3 is below in a Word format and can also be obtained from Blackbaord's Assignment section in a PDF format. Solutions to this problem set MUST be submitted to the Assignments section of Canvas no later than May 2 at 11:59 p.m. U.S. Pacific time .

Assignment #3 HERE

Week 4

April 20-22

Review Session HERE
Today's Limerick HERE

Exam I

If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

 

 

Please note that the format for all exams in BB 450 ecampus is a simple multiple choice format. It is different than the format used in the classroom course. Since I only provide old exams to show the format, I do not provide old exams for multiple choice exams, since the format is known. Neither do I recommend using old exams as study guides as they throw students off when material changes from one term to the next.

Exam I

The exam must be started and completed under the supervision of an ecampus-approved proctor within a window that begins on April 20 at 8:00 a.m. U.S. Pacific time and ends at 5:00 p.m. U.S. Pacific time on April 22.

You may not use notes or calculators on this exam. If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

I will provide you with access to your answers and the correct answers for this exam AFTER the window for taking it has completely closed.

Exam I

Week 5

Outline HERE
Figures can be downloaded in Canvas

12. Catalytic Strategies IHighlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 241-260

Stryer (7) 253-288

Biochemistry Free and Easy (v. 3.0) - 80-96

Stryer (6) - Ch. 9: 2,4,5,12b,13

Stryer (7) - Ch. 9: 7,11,13,17

Week 5
October 29

13. Catalytic Strategies II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 241-260

Stryer (7) 253-288

Biochemistry Free and Easy (v. 3.0) - 80-96


Week 5
Outline HERE
Figures can be downloaded in Canvas

14. Allostery and Regulation I

Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 275-302

Stryer (7) 289-317

Biochemistry Free and Easy (v. 3.0) - 96-100

Stryer (6) - Ch. 10 #1,4, 5, 17

Stryer (7) - Ch. 10: 3,4,5,14,18,23,27


Week 6

15. Allostery and Regulation II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE / Video HERE

Stryer (6th edition) - 275-302

Stryer (7) 289-317

Biochemistry Free and Easy (v. 3.0) - 96-100

Week 6
Outline HERE
Figures can be downloaded in Canvas

16. Carbohydrates I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 303-325

Stryer (7) 319-344

Biochemistry Free and Easy (v. 3.0) - 64-71

Stryer (6) - Ch. 11 #3, 5, 11, 12

Stryer (7) - Ch. 11: 3,4,7,17

Week 6

17. Carbohydrates II / Cellular Signaling I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Songs HERE and HERE

Stryer (6th edition) - 381-408

Stryer (7) 401-426

Biochemistry Free and Easy (v. 3.0) - 195-211

Stryer (6) - Ch. 14 #1, 3, 4

Stryer (7) - Ch. 14: 1,2,3,5,7,8,14

Week 7
Outline HERE
Figures can be downloaded in Canvas

18. Cellular Signaling II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 381-408

Stryer (7) 401-426

Biochemistry Free and Easy (v. 3.0) - 195-211

Week 7
Outline HERE
Figures can be downloaded in Canvas

19. Signaling III / Metabolic Control I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE


Stryer (6th edition) - 409-432

Stryer (7) 427-451

Biochemistry Free and Easy (v. 3.0) - 25-39, 141-144

Stryer (6) - Ch. 15 # 1, 3, 8, 9, 10

Stryer (7) Ch. 15: 1,2,4,7,8,9,10,17,19,22,25,28

Week 7

20. Metabolic Control II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE
Music Video HERE

Stryer (6th edition) - 409-432

Stryer (7) 427-451

Biochemistry Free and Easy (v. 3.0) - 25-39, 141-144

Gibbs Free Energy Video HERE

Transparencies HERE

Week 8
Outline HERE
Figures can be downloaded in Canvas

21. Glycolysis I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Exam content boundary shown in Highlights


Stryer (6th edition) - 433-464

Stryer (7) 453-496

Biochemistry Free and Easy (v. 3.0) - 144-150

Week 8

22. Glycolysis II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 433-464

Stryer (7) 453-496

Biochemistry Free and Easy (v. 3.0) - 144-150


Week 8

May 18-20

Review Session HERE

Exam II

If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

Exam II

The exam must be started and completed under the supervision of an ecampus-approved proctor within a window that begins on May 18 at 8:00 a.m. U.S. Pacific time and ends at 5:00 p.m. U.S. Pacific time on May 20.

You may not use notes or calculators on this exam. If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

I will provide you with access to your answers and the correct answers for this exam AFTER the window for taking it has completely closed.


Exam II

Week 9

23. Glycolysis III / Gluconeogenesis
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 433-464

Stryer (7) 453-496

Biochemistry Free and Easy (v. 3.0) - 150-153

Week 9

24. Sugar Metabolism Regulation
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 592-616

Stryer (7) 615-638

Biochemistry Free and Easy (v. 3.0) - 173-179

Week 9
Outline HERE
Figures can be downloaded in Canvas

25. Glycogen Metabolism I
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 592-616

Stryer (7) 615-638

Biochemistry Free and Easy (v. 3.0) - 173-179

Week 10
26. Glycogen Metabolism II
Highlights HERE
YouTube Video HERE
Today's Limerick HERE
Song HERE

Stryer (6th edition) - 592-616

Stryer (7) 615-638

Biochemistry Free and Easy (v. 3.0) - 173-179

Week 10

(only two lectures for this week)

27. Glycogen Metabolism III / Finishing Up

Highlights HERE
YouTube Video HERE
Today's Limericks HERE/ HERE / HERE
Songs HERE / HERE / HERE / HERE
Music Video HERE

All the Metabolic Melodies HERE

Metabolic Melodies Book HERE

Metabolic Melodies 2015 Calendar HERE

Limerick Book HERE

Stryer (6th edition) - 592-616

Stryer (7) 615-638

Biochemistry Free and Easy (v. 3.0) - 173-179

June 6-8

Review Session Video HERE

Comprehensive Final Exam

If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

Comprehensive Final Exam

The exam must be started and completed under the supervision of an ecampus-approved proctor within a window that begins on June 6 at 8:00 a.m. U.S. Pacific time and ends at 5:00 p.m. U.S. Pacific time on June 8.

On this exam ONLY, you may use one 5x8 inch notecard with handwritten notes (no printouts of any kind). Both sides of the card may be used. You do not have to get the card from me. No calculators are allowed. If you are using ProctorU please note that you will ONLY be allowed to use a whiteboard or chalkboard for scratch paper. No other type of scratch paper is allowed. If you are not using Proctor U, you may use a blank piece of scratch paper provided by your proctor.

I will provide you with access to your answers and the correct answers for this exam AFTER the window for taking it has completely closed.

This exam will have 40-50 questions (30-40% on material since the last exam) and you will have 110 minutes to take the exam.

Good luck to you.
I hope you have enjoyed and learned a lot in my class.

Comprehensive Final Exam