Biochemistry 5753
Principles of Biochemistry
Fall 2009
R. L. Matts
251 NRC, x 46200
robert.matts@okstate.edu
I.
II.
III.
IV.
V.
VI.
VII.
VIII.
IX.
X.
XI.
XII.
Junpeng Deng
248 NRC, x46192
junpeng.deng@okstate.edu
Introduction (Chapt. 1, 3-19)
Thermodynamics and Free Energy (Chapt. 3, 51-61)
Water - Structure and forces (Chapt. 2, 39-44)
Amino acids (Chapt. 2, 44-48, Chapt. 4, 65-78, Chapt. 6, 142-145, Chapt. 7, 167-169)
Proteins
A. Structures
1. Primary (Chapt. 7, 161-168, 170-175)
2. Secondary (Chapt. 8, 219-231, Chapt. 9, 299-301)
3. Tertiary (Chapt. 8, 231-265)
4. Quaternary (Chapt. 8, 265-269, Chapt. 10, 327-332)
B. Purification (Chapt. 6, 127-155)
C. Folding and dynamics (Chapt. 9, 276-299, 302-315)
Enzymes
A. Introduction (Chapt. 13, 459-463)
B. Catalysis (Chapt. 14, 474-477, Chapt. 15, 496-507)
C. Kinetics (Chapt. 13, 473-474, 477-493)
D. Allosterism (Chapt. 13, 465-469, Chapt. 10, 322-327, 332-339, 345-352)
E. Classification (Chapt. 13, 470)
F. Examples of mechanisms (Chapt. 15, 507-528, Chapt. 17, 588-591)
Lipids (Chapt. 12, 382-394)
Membranes and transport (Chapt. 12, 394-407, 413-415, Chapt. 20, 726-750)
Carbohydrates (Chapt. 11, 356-381)
Nucleic acids
A. Genetics and DNA (Chapt. 1, 19-28; Chapt. 5, 80-85)
B. Structures (Chapt, 5, 85-88, Chapt. 29, 1107-1115; Chapt. 34, 1422-1432)
C. Physical properties (Chapt. 5, 88-92; Chapt. 6, 155-158; Chapt. 29, 1115-1135;
Chapt. 31, 1434-1437)
D. Hydrolysis (Chapt. 5, 101-105)
E. Cloning and Sequencing (Chapt. 5, 105-126; Chapt. 7, 175-182)
Molecular biology
A. DNA replication (Chapt. 5, 99-102; Chapt. 30, 1136-1173)
B. Mutation and repair (Chapt. 30, 1173-1184)
C. RNA synthesis (Chapt. 31, 1216-1237; Chapt. 34, 1448-1458)
D. RNA processing (Chapt. 31, 1258-1284)
E. Protein synthesis (Chapt. 5, 95-99; Chapt. 32, 1285-1347)
Regulation of Gene expression
A. Transcription regulation (Chapt. 31, 1216-1220, 1237-1254; Chapt. 34, 1443-1448,
1456-1482)
B. Post-translational modification of proteins (Chapt. 32, 1347-1367; Chapt. 34, 14801482, 1505-1514)
EXAMS:
Exam I:
Exam II:
Exam III:
Final exam
17 September, Thursday –6-8 PM Sections I - V
08 October - Thursday –6-8 PM
Sections VI - VIII
12 November - Thursday –6-8 PM Sections IX – XI.A
24 November- Tuesday –6-8 PM 66% Material from Exam I & II;
34% Material from Exam III
11 December, Friday 8-10 AM
Sections XI.B-XII
Exam IV:
GRADING: All 2 hour exams are worth 20% of total.
TEXTS:
Biochemistry, 3rd Ed., D. Voet & J. G. Voet
(+other assigned readings)
POSSIBLY USEFUL:
Core Topics in Biochemistry, J. Stenesh
Library Reserve material: http://www.library.okstate.edu/
Search course reserves
D2L: https://oc.okstate.edu/
If any member of this class feels that he/she has a disability and needs special accommodations
of any nature whatsoever, the instructor will work with you and the Office of Disabled Student
Services, 326 Student Union, to provide reasonable accommodations to ensure that you have a fair
opportunity to perform in class. Please advise the instructor of such disability and the desired
accommodations at some point before, during or immediately after the first scheduled class period.