Course Syllabus

Laboratory Schedule

Problem Sets

Biochemistry 311

Course Description

This course is a rigorous introduction to the study of protein molecules and their role as catalysts in the cell.Topics include general principles of protein folding, protein structure-function correlation, enzyme kineticsand mechanism, carbohydrate and lipid biochemistry, metabolic pathways - catabolic and anabolic - and their interaction and cross-regulation. Biological transformation of energy is considered in light of the principles of thermodynamics. Prereq. Biol 210, Chem 302; 2 meetings (75 minutes), 1 discussion (50 minutes), 1 lab (4 hours); 4 credits.



Course Syllabus

Text: Biochemistry, by Voet and Voet, 2nd Ed.

 Week  Chapter Reading  Topic
 1  1 & 2  Biochemistry: Introduction
Aqueous Solutions: Properties of Water
 2  2,4 & 7 Acids, Bases, Buffers & pKa's
Amino Acids: Dissociation Properties; pI Determination
Protein Structure: 1o, 2o, 3o, 4o
 3  7, 3, 8 & 6 Protein Folding: Principles
Protein Folding: Thermodynamics, & Kinetics
Protein Sequencing
 4  9 Hemoglobin vs. Myoglobin: Structure & Function
Allosteric Regulation
 5  10 & 11  Sugars & Polysaccharides
Glycoconjugates
Fatty Acids & Complex Lipids
 6  11  Biological Membranes
Exam 1
 7  12 & 13 Enzymes: Introduction
Rate Laws: Chemical Kinetics
Enzyme Kinetics
 8  13 &14 Enzyme Inhibition
Catalytic Mechanisms
Lysozyme & Serine Proteases
 9  3, 15 & 16  Metabolism: An Overview
Principles of Thermodynamics in Metabolism
Glycolysis & Gluconeogenesis
 10  16, 17 & 21 Glycogen Metabolism
Control of Metabolic Flux
Exam 2
 11  19 & 20 Citric Acid Cycle
Structure & Function of Coenzymes
Electron Transport Chain & Oxidative Phosphorylation
 12  20 Chemiosmotic Model of ATP Production
 13  20, 21 & 23 Respiratory Control
Pentose Phosphate Shunt; Glyoxylate Cycle
Fatty Acid Metabolism
 14  24 & 25 Amino Acid Metabolism: Glycogenic vs. Ketogenic
Nitrogen Utilization & the Urea Cycle



Laboratory Schedule

Lab Instructor: J. O'Rourke
Clapp 306

 Week  Laboratory Exercise
 1  Spectrophotometry: Spectral Scanning, e Determination
2  pH and Buffers: Problem Solving Session
 3  pH Lab: Buffer Preparation, Glycine Titration, pI Determination
 4  Molecular Sieve (Gel Exclusion) Chromatography
 5  No Lab (October Break)
 6  Enzymatic Assays: GalK and LDH
 7  Enzyme Purification I: Alkaline Phosphatase
 8  Enzyme Purification II: Alkaline Phosphatase
 9  Enzyme Purification III: Alkaline Phosphatase
 10  SDS-PAGE; Phast Gel Analysis
 11  No Lab (Thanksgiving Break)
 12  Enzyme Kinetics and Inhibition
 13  Mitochondrial Respiration

All lab reports are due one week after the experiment; each is worth 20 points. The exception is the unit on enzyme purification (weeks of 10/26, 11/2, 11/9, and 11/16); this experiment should be written up as one report worth 80 points.

 


Problem Sets

pH and Buffer

This problem set is contained in a PDF file. Please use Acrobat Reader 3.0 to open it.

Enzyme Kinetics

Reaction Thermodynamics

Redox Potential


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