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WWU CHEM 472 - Syllabus

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GradingReviewSecond ExamPhotosynthesisChem/Biol 472 Biochemistry Winter 2010Instructor: G. Prody Office: CB 444 Phone: 650-3156 Office hours: M 11 am-12:30 pm, R 2-3. or by appointment (Lab CB 410 MW 1-5)e-mail: [email protected]: MWF 10, SL 140Texts: Voet and Voet, Biochemistry 3rd edition (2003). Wiley & Sons, Inc. Recommended: Student solutions manual to accompany text and Baum, The Biochemists’ Songbook.Exams: 2 midterm exams @ 100 points. These exams will be held in the evenings (6-8 pm). Get them into your schedules NOW. No make-up exams will be given. Exam dates: Thursday January 28Wednesday February 24 1 cumulative final @ 200 points Monday March 15, 10:30 am-12:30 pmStudents are advised to read pages 41 and 398-399 of the 2009-2010 University Catalog re: the Academic Honesty Policy. I will enforce this policy if necessary.GradingYour grade will be determined from the sum of your exam scores plus points you receive for class participation as follows: Each student will fill out an index card with pertinent information. During class, I will call on students to answer questions by drawing a card. You will receive one + for being present (one – if you’re absent) and another for providing a correct response. Lifelines are available.At the end of the quarter, I will normalize your +/- values and determine your total out of 100 possiblepoints. Everyone gets one free miss. The class average for the total point sum will be a B-.Course content:This quarter we will continue studying some of the building blocks of biochemically important polymers of lipids and carbohydrates. The bulk of this quarter is devoted to intermediary metabolism—the heart and soul of life and the historic center of the field, and you will learn some of these pathways, the process of energy transduction, production of building blocks and energy storage as well as regulation and metabolic errors. We will cover chapters 11, 12, and parts of chapters 16-28 in Voet2. It is imperative that you read ahead in your text, as we have an incredible amount of material to cover and this will help you understand the lectures.Work the problems at the ends of the chapters as preparation for the exams. Students in the past have complained that they don't get enough practice doing problems before they take the exams (which will be nearly all word problems). To avoid this pitfall, work lots of problems on your own. I will post an old exam prior to each test.Other Useful Resources: If you are looking for more info on pathways (or for info on pathways not discussedin lecture), there are several web-based resources that provide detailed info on metabolic pathways. For example: www.metacyc.org. Course content and expected outcomes: Metabolism, metabolism, metabolism. Conversion of nutrients to energy transducers and simple biomolecular building blocks. Conversion of metabolic intermediates intobiomolecular building blocks and energy storage molecules. THERMODYNAMICS!!! Pathways, regulation, pathogenesis. We will attempt to cover chapters 16-18, 20-23, 25, 26 in Voet. This involves reading about 350 pages of Biochemistry. You should allow several hours/week for reading and problem solving. Metabolism is the historical heart of biochemistry and like other topics in this vast field it is very complex. An understanding of metabolic processes is the gateway to a detailed understanding of “the living state” and hasgreat relevance to human health and disease. We will not be able to cover all of intermediary metabolism and we will certainly not discuss details of secondary metabolic processes (e.g. xenobiotic biosynthesis); however, it is my goal to help you to develop the intellectual tools you will need to study and understand any metabolic pathway. These include: (1) an understanding of the mechanistic organic chemistry of enzymatic reactions, (2) the thermodynamics of the pathway, (3) regulation of the flux through the pathway, (4) integration of the pathway with other cellular processes. I therefore will expect the following outcomes:- Students will apply the concepts and tools of bioenergetics (changes in free energy, LeChatelier’s Principle, homeostasis) to predict the changes in free energy (DG) in biochemical reactions and membrane transport processes. The ability to properly calculate and interpret thermodynamic parameters (DG, DG°’, RTlnQ, etc.) for general biochemical processes is an expected outcome.- Students will apply the principles of enzymatic catalysis to the study of multi-step metabolic pathways. This includes: (1) analysis of reaction mechanisms (correctly drawing electron movement), (2) recognition of mechanistic similarities between various reactions, (3) differential regulation of flux through pathways (feedback/product inhibition).- Students will gain an understanding of the principles of coordinated control of metabolism: (1) the role of allostery and reversible covalent modification (e.g., phosphorylation of key amino acid residues) in regulation of flux through pathways, (2) hormonal control of pathways in multiple tissues, (3) how the concentrations of key metabolites affect pathway regulation.- Students will develop understanding of the molecular details of carbohydrate, lipid, and aminoacid metabolism and the coordination of these processes to the production and/or consumption of metabolic energy.- Students are expected to develop a broadly applicable understanding of the principles of biochemistry which is, in turn, the basis for developing biochemical problem solving skills.In addition, I encourage you to attend as many chemistry and biology seminars as possible. The Chemistry seminars are held Fridays at 3:15 pm in SL 130. Biology seminars are Mondays at 4 pm in BI 234. Web-based resources include: http://www.gwu.edu/~mpb/index.htmlChem/Biol 472, Winter 2010Tentative Lecture ScheduleSubject to CHANGE!# = chapter in Voet2Week Monday Wednesday Friday1 (1/4) no class Intro to Metabolism16Intro 2162 (1/11) Lipids andMembranes12Lipids cont’d Carbohydrates113 (1/18) Martin Luther KingJr. Holiday Carbohydrates 2 Glycolysis174 (1/25) Glycolysis 2 Review session (First exam R 6pm)Regulation5 (2/1)GlycogenMetabolism 18 GlycogenMetabolism 2MembraneTransport 206 (2/8) TCA CycleV 21TCA Cycle2 Regulation7 (2/15) President’s DayHolidayElectron Transport22Ox-Phos8 (2/22) Gluconeogenesisand PentosePhosphate23ReviewSecond Exam6-8


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