Course Outline Biochemistry 301 Winter 2016 Brad Hamilton. Office: 1410A Office Phone:

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1 Course Outline Biochemistry 301 Winter 2016 Brad Hamilton Office: 1410A Office Phone: Class Time: M T Th 12:30-1:20 Credit hours: 3 Academic Calendar Entry Office Hours: M 11:00-12:00, T 1:30-2:30, W 12:30-1:30, Th 1:30-2:30 Class Location: B505 Prerequisite: Chem. 211, Chem. 251 or Chem. 351 Introductory Biochemistry An introduction to the fundamental principles of biochemistry. Protein structure and function; lipids and the structure of biological membranes; nucleotides and the structure of nucleic acids; bioenergetics and the metabolism of carbohydrates, lipids, and nitrogen; the integration and regulation of cellular metabolism. Prerequisite: Chem. 211, Chem. 251 or Chem Students may only transfer BIOC 301 or BIOC 393 for credit. Learning Outcomes Explain the structure of biochemical molecules (e.g. Lipids, carbohydrates, proteins). Explain the structure of biochemical molecules (e.g. Lipids, carbohydrates, proteins). Differentiate between types of biochemical molecules. Explain the metabolism of biochemical molecules. Analyze the regulation, energy changes and connections in metabolic pathways. Evaluate metabolic reactions using enzyme kinetics. Analyze and solve problems involving buffers. Required Texts and Equipment Lecture Text: Biochemistry, 1st Canadian Edition, Garrett, Grisham, Andreopoulos, Willmore, Gallouzi, Nelson (2013) Scientific Calculator: Programmable calculators are allowed in this course for midterms and final exams, however, I reserve the right to both check AND possibly erase the calculator s memory before or during an exam. Recommended Readings and Resources 1. Introduction to Biochemistry -Biomolecules and biopolymers (Chapter 1, pages 2-17) -Intermolecular forces in biomolecules (Chapter 2, pages 32-39) Page 1 of 6

2 -Buffers (Chapter 2, pages 40-50) 2. Protein Structure and Function -Amino acids (Chapter 4, pages 75-91) -Peptide bonds and protein primary structure (Chapter 4, pages 91-95) -Secondary structure (Chapter 6, pages ) -Tertiary structure (Chapter 6, pages ) -Cooperativity and allosteric proteins, myoglobin and hemoglobin -Quaternary structure (Chapter 6, pages ) -Protein purification and sequencing (Chapter 5, pages ) 3. Enzymes -Introduction to enzymes (Chapter 12, pages ) -How do enzymes work -Catalytic mechanisms (Chapter 13, pages ) -Substrate binding and stabilization of the transition state -Enzyme Kinetics and Inhibition of enzyme activity (Chapter 12, pages, ) -Enzyme Regulation (Chapter 14, pages ) -Coenzymes and vitamins 4. Introduction to Metabolism -Energy and metabolism (Chapter 3, pages 53-71) -Metabolic pathways (Chapter 16, pages ) -Thermodynamics and metabolism -ATP and coupled reactions -Oxidation and reduction 5. Glucose Metabolism -Carbohydrates -Polysaccharides -Glycolysis (Chapter 17, pages ) -Fates of pyruvate -Regulation of glycolysis -Glycogen degradation and synthesis (Chapter 21, pages ) -Regulation of glycogen metabolism -Gluconeogensis (Chapter 21, pages ) 6. Citric Acid Cycle Chapter 18, pages Conversion of pyruvate to acetyl-coa -Reactions of the citric acid cycle -Regulation of the citric acid cycle -Catabolism, anabolism and anapleurotic reactions -Glyoxylate cycle (Chapter 18, pages ) 7. Oxidative Phosphorylation and the Electron Transport Chain Chapter 19, pages Oxidative phosphorylation -Electron transport chain 8. Lipids and Biological Membranes Chapter 8, pages ; Chapter 10, pages 299- Page 2 of 6

3 335 -Structure of fatty acids and triacylglycerols -Structure of membrane lipids -Lipid bilayers, membrane fluidity, and the fluid mosaic model -Membrane proteins -Signal transduction 9. Metabolism of Fats and Fatty Acids -Oxidation of fatty acids (Chapter 22, pages ) -Ketone bodies -Fatty acid synthesis (Chapter 9, pages , ) Optional 10. Synthesis and Transport of Cholesterol -Cholesterol synthesis -Lipoproteins and atherosclerosis 11. Nucleotides and Nucleic Acids -purines and pyrimidines -nucleosides and nucleotides -the structure of nucleic acids 12. Nitrogen Metabolism -Nitrogen fixation and assimilation -Synthesis of amino acids -Synthesis of non-essential amino acids -Catabolism of amino acids -Urea Cycle 13. Protein Synthesis Assessment- Assignments 10% Midterm1 25% Midterm 2 25% Final Exam 40% Optional Assignment 5% The optional assignment is a 10 minute in-class presentation on a topic in biochemistry. If you choose to do the optional assignment, it will decrease the weighting of a midterm by 5%. Assignments & Examinations Assignments: Assignments will be given on the different topic areas. These assignments (approximately 10) will be taken in for marking and are worth 10% of the course grade. Exams: Two 1-hour midterm exams and a 3-hour comprehensive final exam are scheduled. The midterms will be in February and March. Final Exam: You are expected to be available from April 16 to 22 for writing the final examination. A final examination schedule is posted on the Registrar s Office Bulletin Board Page 3 of 6

4 (north wall of Forum), in March. The final exam is a 3 hour comprehensive exam, and an exact mark breakdown will be given in class. Grading Scale The final overall % grade will be converted to the College grading system using the following approximate ranges (applicable to this course only): Grade Grade Point % Range A A A B B B C C C D D F 0.0 <50 Students intending to transfer to universities should make themselves aware of the minimum passing grade acceptable for transfer. Attendance Requirements Regular attendance at all lectures and labs is compulsory. Make-up quizzes and exams will not, in general, be allowed. In the event you must be absent, you must assume full responsibility for missed material. Students are strongly cautioned not to miss quizzes and exams. Failure to notify the instructor in advance (if possible) and to provide a valid reason will result in a mark of zero being assigned. The RDC Final Examination Policy will be followed at all times with respect to Final Examinations. Please review this document to ensure that you understand the contents and implications of the policy. Click here to see the Final Examination Policy. Academic Misconduct Academic misconduct in all its forms is a serious offence. Please read the definitions that follow, and refer to the links below for the complete policies. Definitions Academic misconduct: Academic misconduct is the giving, taking, or presenting of information or material that unethically or dishonestly aids oneself or another on any work which, under normal circumstances, is to be considered in the determination of a grade or the compilation of academic requirements or the enhancement of that student s record or academic career. The two key areas of academic misconduct are cheating and plagiarism. Page 4 of 6

5 Plagiarism: The use or close imitation of language, paintings, films, prototypes and ideas of another author and representation of them as one's own original work. The most common forms of plagiarism are: copying or paraphrasing another author s work without proper acknowledgement, using the ideas or lines of reasoning of another author s work without proper acknowledgement, submitting work to which someone else has made substantial improvements to the content, and submitting the same work for multiple courses without approval. Plagiarism can be judged to have occurred if the instructor has both the submitted material and original source that was copied, or if the student is unable to explain the terminology or ideas of a submission. Cheating: Any attempt to give or obtain unsanctioned assistance in a formal academic exercise (e.g., examination). Student Misconduct: Academic and Non-Academic Policy Appeal: Formal Policy Appeals: Informal Resolution Policy Important Red Deer College Dates - Winter 2016 January 4 College open. No credit classes. January 5 First day of classes for Winter term Mid-term feedback date for Full-year courses. January 13 Last day to register late or add/drop Winter term 2016 courses. January 13 Last day to have tuition refunded for Winter term 2016Wcourses. February 15 Family Day 2016; College closed. February Mid-term break. No credit classes. February 22 Credit classes resume Winter term March 1 Emergency Response Day. March 7 Midterm feedback date for Winter term 2016 courses. March 14 Final exams schedule posted Winter term March 21 Continuing student registration begins for March 25 Good Friday; College closed. March 30 Perspectives: Speaker Justice Murray Sinclair March 31 Perspectives: Morning student session with Justice Murray Sinclair April 11 Last day to withdraw from Winter 2016 and Full-year courses are receive a WD. April 11 Last day of classes for Winter term 2016 and Full-year courses. April Final exams written. April 27 Deferred exams written for Winter term 2016 and Full-year courses. April 29 Last day for submission of final grades for Winter term 2016 courses and Full-year courses. April 30 Final grades available for Winter term 2016 and Full-year courses. May 14 Supplemental exams for Winter term 2016 and Full-year written. Prior Learning Assessment This course may be eligible for Prior Learning Assessment and Recognition. Students should refer to the RDC Academic Calendar for a list of excluded courses. Student Services on Campus Students should be aware that Personal Counselling, Career, Learning and Disability Resources are provided by RDC. Students may inquire about locations at the Information Desk. It is the responsibility students to discuss their specific learning needs with the appropriate service provider. Page 5 of 6

6 Learning Support (Library: , ) Writing Skills Centre Math Learning Centre (math concepts and advanced theoretical math) Learning Strategies (note-taking, studying and exam-writing strategies) Peer-Assisted Study / Tutoring (one-on-one tutoring by students) Disability Resources (Library: , disabilityservices@rdc.ab.ca) Coordination of services (tutoring, alternate format text, note-taking and so on.) Academic accommodations, including exam accommodations Counselling and Career Centre (Room 1402: , counselling@rdc.ab.ca) Changes to Course Outline No changes will be made to this course outline without the consent of the class and the approval of the Associate Dean of the School of Arts and Sciences. It is the student s responsibility to be familiar with the information contained in this course outline and to clarify any areas of concern with the instructor. Students should refer to the Appeals: Formal Policy, Appeals: Informal Resolution Policy and Student Misconduct: Academic and Non-Academic Policy should questions or concerns about the Course Outline not be resolved directly with the instructor. Course Topics 1. Introduction to Biochemistry 2. Protein Structure and Function 3. Enzymes 4. Introduction to Metabolism 5. Glucose Metabolism 6. Citric Acid Cycle 7. Oxidative Phosphorylation and the Electron Transport Chain 8. Lipids and Biological 9. Metabolism of Fats and Fatty Acids Optional 10. Synthesis and Transport of Cholesterol 11. Nucleotides and Nucleic Acids 12. Nitrogen Metabolism 13. Protein Synthesis approved December 16, 2015 Page 6 of 6