Reading assignments, Week I - 23-25 June 2009

myoglobin (used with permission)

Reviewed on Tuesday:

Chapter 1: THE FOUNDATIONS OF BIOCHEMISTRY

This entire chapter is introductory, and we will revisit many of these topics during the course. However, refreshing your memory of them as we begin will be to your advantage. Sections 1.2 and 1.3 are the most likely to require careful reading. Section 1.4, Genetic Foundations, reviews the role of DNA in encoding proteins. Section 1.5, Evolutionary Foundations, is important background, but will not be a central topic in this course.

Figures to note: 1-3, 4, 7, 10, 11, 13, 14, 15, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 30, 31, 32
Box 1-3

Chapter 2: WATER

In this and all reading assignments, "A" indicates a section you will need to read slowly and with great care. "B" indicates a required section that you can probably read more easily (like a Scientific American article). Read B, study A. Note that the "A" sections are not more important than B, they just require more focused attention. "R" indicates a section that is recommended reading, but it not required.

B
A
R
B
41-54
54-63
63-64
65-66

Figures to note: 2-1 through 21
Tables 2-2, 2-3, 2-5,
Boxes: 2-2, 2-3, 2-4
Worked Examples: 2-5, 2-6a



For Wednesday:

COURSE SYLLABUS

Please carefully read the course syllabus. You are responsible for knowing and acting upon all information in that document.

Chapter 3: AMINO ACIDS, PEPTIDES, AND PROTEINS

B
A
B
A
B
R
71-72
72-83
83-84
85-92
92-94
94-106

Note figures: 3-2, 3, 4, 5(memorize), 6, 7, (8), 9 through 23, (24)
Tables: 3-1*, (3-2), (3-3), (3-4), 3-5, (3-6), (3-7 - where some proteases hydrolyze polypeptide chains)
Box: 3-1, (3-2 recommended)
Worked Example: 3-1

Chapter 13: PRINCIPLES OF BIOENERGETICS

B
A+
B
A
B
R
B
489-491
491-495
495-500
500-508
508-511
512-516 (will be covered later)
516-521

Note figs: Part I Intro 3 and 4. Pretty much all the numbered figures in the required sections are of value.
Tables: 13-1 (useful constants. We will use joules, not calories.), 13-2, 13-3, 13-4, 13-5, 13-6, (13-9)
Boxes: (13-1)
Worked Examples: 13-1, 13-2

Chapter 4: THE THREE-DIMENSIONAL STRUCTURE OF PROTEINS

(Part of this chapter will be covered on Thursday.)

B
A
B
113-140
141-142
142-147

Note figures: 4-1, 2, 4, 5, 6, 7, (8), (9), 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21 as examples, (22 - we will see more of this next lecture), 23, (24), 25, 26*, 27, (28), (29), (30, (31)
Tables: (4-1), (4-2), (4-3)
Boxes: (4-1: This method never worked for me, but if you get it, go for it! I use this: a standard bolt or screw is a right-handed helix.), 4-2, 4-3: good stories!, (4-4), 4-5



For Thursday:

Chapter 5: PROTEIN FUNCTION

(Part of this chapter will be covered next Tuesday)

A
R
B
A
157-169
170-171
171-179
Box 12-2; 425-427

Note figures: 5-1 through 5, (6), 7, 8, 9*, 10*, 11*, 12*, 13, (14), (15), 16*, 17*, 18, (19), 20, 21, 25, 26, 27, 28, (29), 30, 31, (32) and Ch 12 Box 12-2, Figs 2, 3, 4
Table: 5-1
Box: 5-1
Worked Example: 5-1

Over the weekend: Review amino acid structures and R group chemistry, including pKas, for next Tuesday's quiz!





University deadline: Friday is the last day to withdraw or drop from courses and still receive a refund.



'A' and' B' sections are required reading. If you are extremely short of time and can't read the entire assignment thoroughly, put most of your effort into the 'A' sections, and the 'B' sections more lightly. Reading breaks at the obvious point on the page unless otherwise noted, or in some cases, at the end of a page. 'R' means recommended.