Professor Briggs BCHS3304 Syllabus Fall14 PDF

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Syllabus for BCHS3304. It’s a syllabus. Thank you....

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COLLEGE OF NATURAL SCIENCES & MATHEMATICS DEPARTMENT OF BIOLOGY AND BIOCHEMISTRY

http://nsm.uh.edu http://www.bchs.uh.edu

COURSE TITLE/SECTION: BCHS3304: General Biochemistry I; Section: 13724 Course web page: Blackboard TIME: Tue/Thu 1:00 PM - 2:30 PM; Science and Research I 117 FACULTY: James M. Briggs, Ph.D. OFFICE HOURS: Tue (10:30-11:30 AM), Wed (1:00-2:00PM) or by appointment OFFICE: Science and Research II, room 370 E-mail: [email protected]

Phone:

713-743-8366

Required Prerequisite Courses: CHEM 3221 (Fundamentals of Organic Chemistry I Lab) and CHEM 3331 (Fundamentals of Organic Chemistry I) Disclaimer: The schedule and topics below are subject to change in the event of extenuating circumstances, including, but not limited to, instructor illness or class cancellations due to inclement weather.

I.

Course A.

Catalog Description Nature of the chemical constituents of living organisms, including carbohydrates, lipids, nucleic acids, and enzymes.

II.

Course Objectives Upon completion of this course, students will know: 1. 2. 3. 4.

Amino acid identity, structures, properties, and functions Protein structure and function, including hemoglobin Enzyme mechanisms and kinetics The glycolysis and gluconeogenesis pathways and the citric acid cycle.

1

II.

Course Content

BCHS 3304 Class Schedule Lect #

Chap. Lecture topics and suggested homework problems

1 (26Aug)

1

Introduction to the Chemistry of Life Book: 1, 2, 5-17 Companion: 14, 16a, 16c

2 (28Aug)

2

Water Book: 1, 3-5, 7, 8, 10-22, 24, 26 Companion: 2-5, 9-16

3 (2Sep)

2&4

Water and Amino Acids

4 (4Sep)

4

Amino Acids Book: 1, 5-22 Companion: 2, 6-8, 10, 13, 18, 19

5 (9Sep)

4&5

Amino Acids and Protein: Primary Structure

(10Sep) 6 (11Sep)

7 (16Sep)

5

6

8 (18Sep) 9 (23Sep)

(Last day to drop a course or withdraw without receiving a grade) Proteins: Primary Structure Book: 1, 2, 5, 7-11, 13-15, 17, 19, 23-28 Companion: 6-9, 15, 16, 18-20, 22, 23 Proteins: Three-Dimensional Structure Book: 2-6, 9, 13-16, 19, 23, 24 Companion: 1, 2, 4, 6, 7, 11, 22, 24, 25 Covers Lectures 1-6, Chaps. 1, 2, 4, 5

6&5

EXAM I

Protein Structure and Purification

10 (25Sep) 5

Protein Purification

11 (30Sep)

7

Protein Function: Myoglobin and Hemoglobin Book: 1-6, 8, 12, 14, 16, 19, 25-29 Companion: 2, 4, 6, 7, 11, 15

12 (2Oct)

7

Protein Function: Myoglobin and Hemoglobin

13 (7Oct)

7

Protein Function: Actin/Myosin and Antibodies

11

Enzyme Catalysis Book: 1, 2, 7-16, 19, 21, 22 Companion: 2, 3, 11, 12, 17

14 (9Oct)

Exam

15 (14Oct)

Exam covers Lects. 7-14, Chap. 5-7, 11 (partial)

16 (16Oct) 11

Enzyme Catalysis 2

EXAM II

12

Enzyme Kinetics, Inhibition, and Regulation Book: 1-6, 8-11, 15-17, 19, 20, 23-30 Companion: 1, 3, 6, 7

18 (23Oct) 12

Enzyme Kinetics, Inhibition, and Regulation

19 (28Oct)

14

Introduction to Metabolism Book: 3-11, 16-18, 27, 28 Companion: 3, 8, 9

20 (30Oct)

Introduction to Metabolism & Carbohydrates 14&8 Book: Ch 8: 1, 5, 9, 11, 14, 17, 24 Companion: 1, 2

17 (21Oct)

(31Oct) 21 (4Nov)

(Last day to drop a course or withdraw) 15

Glucose Catabolism Book: 2, 4, 6-8, 11-16 Companion: 2

22 (6Nov) 23 (11Nov) 15

Lect. 15-20, Chaps. 8 (partial), 11, 12, 14 Glucose Catabolism

24 (13Nov) 15

Glucose Catabolism

25 (18Nov) 16

Gluconeogenesis Book: 2, 3, 6, 13, 19, 20, 22 Companion: 18

26 (20Nov) 17

Citric Acid Cycle Book: 1-3, 5, 6, 13, 14, 16-19 Companion: 3, 5, 8

(25Nov)

No Class

(26-29Nov)

Thanksgiving Holiday, No Class

27 (2Dec) (4Dec)

17

EXAM III

Citric Acid Cycle REVIEW (LAST DAY OF CLASS)

Comprehensive Final Exam Thu., Dec 16 2PM–5PM, SR1 1 17 IV.

Course Structure The course consists of lectures covering the most salient features of the associated material in the book chapters. There will be three regular exams and a final exam, each accounting for 20% of the overall grade (80% overall). The remaining 20% of your grade will come from online assignments, and class attendance and participation. Students are required to attend ALL lectures and take ALL exams. 3

V.

Textbooks and other required materials Bookstore bundle: (1), (2), (3) 978-1118-38696-5 Bookstore bundle: (1), (3) 978-1118-36394-2 Bookstore bundle: (1), (2) 978-1118-38995-9 (1) Voet, D., Voet, J., and Pratt, C.W. Fundamentals of Biochemistry, 4th Edition, ISBN: 0-470-54784-7 (4 th hard), binder version also available. (2) Uzman, Eichberg, Widger, Voet, Voet, and Pratt Student Companion to Accompany Fundamentals of Biochemistry, ISBN: 1-11821827-2 (soft cover). (3) Wiley Plus code: This can be purchased via a bundle or separately online through Wiley. Needed to carry out graded assignments. (4) Clicker: Response Card RF LCD by Turning Tech, 978-1934-93140-0. This will be needed for every class period and will form part of the attendance and class participation contribution to the grade. (5) Scientific calculator (not a phone app): This will be needed for every exam. It does not have to be a graphing calculator. I will NOT be able to loan calculators during the exams. The study guide (Student Companion) is extremely important - it is designed to answer the question: “What am I expected to know?

VI

Course Requirements/Information All students are required to attend ALL lectures and take ALL exams. Do not fool yourself into believing that you can read the online notes and review old exams and do well in this class. In my experience, the students who take this route almost never succeed and usually earn an F. Assignments: Problems will be assigned online through Blackboard from the textbook, Student Companion, and other materials. Only a selected subset of the assigned problems will be covered directly in the lectures. The best way to learn Biochemistry is to work the assigned problems. The online assignments, together with your attendance and class participation, will account for 20% of your class grade. Answers to the suggested homework problems (see the class schedule above) can be found in the back of the textbook, Student Companion, and/or in class notes. These suggested homework problems will neither be collected nor graded. 4

Answer Keys: Relevant Scantron answer keys, lecture notes, and other useful information may be posted on the course web page. Worked exam keys may be posted in the glass cabinets in the hallway next to the fourth floor lobby in the Houston Science Center. Class TA: We will have a TA for the class. The TA has been instructed to attend class lectures and to hold two recitation sessions per week. These sessions are optional but are highly recommended. If you score below 70% on the first exam, I STRONGLY urge you to attend one or both of those sessions. The TA will also be available for one-on-one or small group meetings. Drop policy: Students who have not taken an exam and have not stated their intention to remain in the class might be dropped from the mid-term class rolls, however, it is ultimately the student's responsibility to drop from the course if they so desire. Students may drop any time on or before September 10 and will receive a grade of “W.” Students dropping after September 10 and on or before October 31 must have a passing grade based on exams and assignments to earn a “W”. If a student drops before the date for the first exam, a "W" will be assigned. Students may not drop the course after October 31. Academic Honesty Policy: Cheating or any other suspected violations of academic honesty will not be tolerated. Please refer to the University of Houston Student Handbook for a description of academic honesty policies. Suspected violations of academic honesty will be reported to the Dept. of Biology & Biochemistry Associate Chair of Undergraduate Affairs and if substantiated could result in the student receiving a zero for an exam, a grade of “F” for the course, or suspension from the University. Addenda: Whenever possible, and in accordance with 504/ADA guidelines, the University of Houston will attempt to provide reasonable academic accommodations to students who request and require them. Please call 713-743-5400 for more assistance. Do not hesitate to meet with me to discuss such concerns/needs. University policy and/or the Student Handbook take precedence over policies in this syllabus. VII.

Evaluation and Grading Grading scale for the course: The most likely grading scale for the course will be: 100-90 A; 89.9-89.0 A-; 88.9-88.0 B+; 87.9-80 B; 79.9-79.0 B-; 78.9-78.0 C+; 77.970 C; 69.9-69.0 C-; 68.9-68.0 D+; 67.9-60 D; and < 60 F. If there is a change from this scale based on student performance throughout the entire length of the course, it will only change in your favor (i.e., bottom ends of grading scales may decrease but they will not increase). 5

Exams: Regular Exams and the Final Exam will be based on lecture material, assigned textbook reading, study exercises, and homework. All students MUST take ALL exams. There will be NO dropped exam scores!! Exams are closed-book. Calculators and pencils should be brought to all exams. Scantrons will be provided. You may not use any pre-programmed equations or data in your calculator. There will be three in-class Regular Exams plus a Final Exam. The Final Exam will have the same weight as a Regular Exam. Each exam will count 20% toward your final grade (80%). Each exam is worth 100 points made up of 50 multiple choice questions each worth 2 points. The exams are 100% multiple choice. There is no partial credit. There is a total of 400 exam points for the course. All exams are given during a class period in the same room where we hold class lectures. The Final Exam will be comprehensive (covers entire course), however, ca. 25% of the Final Exam will be based on Chapters 15, 16, and 17. All exam materials, including exam, Scantron, and scratch paper must be turned in to the instructor or a proctor at the end of the test period. If your score on the final exam is greater than that of any *one* of the regular attempted exams, then I will replace that score with your score on the final. However, note that you MUST take ALL exams. This means that the final exam WILL NOT replace a 0 (zero) on an exam that you did not attempt. Also, a higher exam score will NOT replace your score on the final. I DO NOT believe in "dropping" an exam score or in excusing the final exam. This implies that some material is not important. ALL of the material is important. For example, if you have test scores of 65%, 80%, and 75%, and a final exam score of 85%, then I will replace your lowest attempted exam score (65%) with 85% and the exam portion of your final grade will be based on 85%, 80%, 75%, and 85%, all equally weighted. Here's another example: if you have test scores of 65%, 0%, 80%, and 75%, then I will replace your lowest attempted exam score (65%) with 75% and your final grade will be based on 75%, 0%, 80%, and 75%. Note that this score replacement will ONLY be done if your score on the final exam is higher than one of your other scores. This policy recognizes the fact that you may perform poorly on one exam for any number of reasons, but if you demonstrate that you know the material on the comprehensive Final Exam, then I will give you the "benefit of the doubt". No make-up exams will be given. Availability of exam results: Exam and assignment results will be available to you via Blackboard. If you want to ask me to reconsider my grading of a question on your exam, your entire exam will be re-graded. If I have done something wrong, I will be glad to correct the mistake. Please be advised that I do not tolerate academic dishonesty and I have procedures in place to help detect such situations. Exams and scantrons will USUALLY be returned to students 1-2 class days 6

following an exam. Exams not picked up on that day will be available, without appointment, in boxes on the table outside of Houston Science Center, room 402D. Assignments and class participation: The instructor will provide online assignments covering the material presented in the text and in the lectures. These will be automatically/computer graded and will constitute, together with your attendance and class participation, 20% (100 class points) of your total grade. This is the portion of the class where you can have the greatest impact on your class grade. Do ALL assignments on time, come to class, and participate. The online assignments will account for 15% of your final grade while class attendance and participation will account for 5%. Incomplete Grade Policy: A temporary grade of “I” can be assigned by the instructor when a student is currently (a) passing a course or (b) still has a reasonable chance of passing in the judgment of the instructor, but for nonacademic reasons beyond their control have not completed a relatively small part of all requirements. After the student and instructor agree that the student shall receive an “I” grade, an “Incomplete Grade Agreement” form must be completed and filed with the Office of Undergraduate Affairs (1st floor, Fleming Building). It is the student’s responsibility to see to it that this form is filled out and delivered. Further information on “I” grades can be found at http://www.uh.edu/dos/studenthandbook/.

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