BI337 Biochemistry

for UJU 2012

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Vision Statement: Park University, a pioneering institution of higher learning since 1875, will provide leadership in quality, innovative education for a diversity of learners who will excel in their professional and personal service to the global community.


BI 337 Biochemistry


UJU 2012 HO


Royals, Brenda


Instructor of Biology


M.S. in Biochemistry and Molecular Biology, LSU Health Sciences Center
B.S. in Chemistry, Southeastern Oklahoma State University (Cum Laude)

Office Location

113A, Science Hall

Office Hours

By Appointment

Daytime Phone

(816) 584-6592


Semester Dates

June 4, 2012 - June 29, 2012

Class Days


Class Time

8:00 - 10:15 AM


CH318 and CH318L and/or the equivalent

Credit Hours



Biochemistry: A Short Course by Tymoczko, Berg, & Stryer, 1st edition, 2010, WH Freeman & Co. New York, NY (ISBN-13: 978-0-7167-5840-2).

Supplemental handouts for each laboratory exercise will also be provided by the instructor via eCompanion or during class.

Textbooks can be purchased through the MBS bookstore

Textbooks can be purchased through the Parkville Bookstore

Additional Resources:

More advanced textbooks always contain more detailed information, and some of these are available in the library. Additional information, informational links, suggested readings, and supplemental lab exercises will be presented in class or online as they become available. All official class announcements and outlines will be posted on the E-Companion site (  It is therefore crucial that each student learn how to navigate this important site.  Postings may be in the form of power point, word documents, or excel files.  Each student is responsible for printing notes and outlines that may be provided by the instructor.

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Course Description:
BI337 (CH337) Biochemistry: Biochemical systems and the relation of chemical structure to biochemical function are discussed. Prerequisites: CH318 and CH318L 3:0:3

Educational Philosophy:
Learning is an active and interactive process.  Ideally, it would best be promoted by a cobitnation of questioning and feedback involving each student.  Thus, I like to teach in ways to try and reach all types of students with their diverse learning styles and do my best to provide a constructive learning environment.  I like to enourage students to set high learning expectations, thus classroom attendance and participation are necessary for achievement of this goal.   

Materials learned in the lecture portion of the course will be applied in the laboratory exercises. It is therefore crucial that students attend and participate in each laboratory session.  Hands-on laboratory work will expand and reinforce many of the major concepts from lecture so that you remember them in your future career settings.

Learning Outcomes:
  Core Learning Outcomes

  1. Deduce how structure and function relate in biological molecules.
  2. Discuss the flow of mass, energy and information in a cell in terms of biochemical pathways.
  3. Discuss the flow of mass, energy and information in a cell in terms of biochemical pathways.
  4. Compare biochemical pathways in prokaryotic and eukaryotic systems

Core Assessment:

Create a review paper in the style of Annual Reviews in Biochemistry covering one biochemical or intercellular signaling pathway in a cell or cells. This paper should be at least 10 pages in length (using the attached Instructions to Authors) excluding figures and references. Information covered should include: 

1. Step-by-step illustration of the biochemical or intercellular signaling pathway (CLO 1, 2).

2. Discussion of the general flows of the pathway (flow of information, flow of mass, flow of energy) and the logic underlying the pathway (why does this arrangement work well?) (CLO 1,2, 3).

3. Indication of key regulatory steps in the pathway and explanation of why this is a logical regulatory step (CLO 1, 2, 4).

4. Indication of how this pathway relates to the central metabolic pathway (glycolysis, TCA cycle, electron transport chain, oxidative phosphorylation) (CLO 2).

5. Discuss the commonalities and differences exhibited in this pathway in prokaryotes and eukaryotes (CLO 4).

6. What diseases or disease states are associated with defects in this pathway? If there is no literature, predict what would happen (indicate your rationale) (CLO 1, 2, 4).

7. Discuss how the disease states in 6 are differentially expressed in human populations (is there a difference in disease effect or prevalence based on age, sex, geographic location, environmental factors, ancestral origin, race…etc). What are the bases of these differences? If there appears to be no difference in disease effect or prevalence, discuss why.

8. Discuss methods used to combat the disease or approaches that are planned. How do/will these work?



Link to Class Rubric

Class Assessment:

Class Assessment:
3 Exams (100 points each) 300 points
10 Quizzes (20 points each) ** 180 points
Homework   50 points
Research Paper 200 points
Final Exam 150 points
Total Points 880 points
There will be 3 major lecture examinations worth 100 points each (300 total points). Exams will contain short answer, matching, multiple-choice, and a few discussion questions. Homework will provide an additional 50 points of the final grade. Daily quizzes will be worth 20 points each and will be worth 180 overall points (**The lowest quiz grade will be dropped).  The final exam will be worth 150 points.   And finally, the review paper will be worth 200 points for a total of 880 total points possible.  


A traditional grading scale will be followed with: 90% or greater being an A, 80% or greater being a B, 70% or greater for a C, 60% or greater for a D, and less than 60% being an F.  Your cumulative percentage in the class is simply your accumulated points divided by the total points possible and then multiplied by 100%. 

Late Submission of Course Materials:

Late assignments WILL NOT be accepted after the stated deadline, except under the most severe of extenuating circumstances.  Any such emergency must have provided documentation which will then be judged by the instructor as to its acceptability. Late homework and assignments (including lab notebooks when called in for review or lab projects with a dated deadline) will receive the grade of zero! Students missing class due to participation in athletic or other university-sponsored events must turn in all due assignments PRIOR to their expected absence (see below).
No makeup exams or quizzes will be given unless proper documentation of the reason for the absence is provided.  Only SERIOUS incidences will even be considered.  Make up exams will be given only at the instructors discretion. 

Classroom Rules of Conduct:

All students are expected to follow the common rules of acceptable and courteous behavior while in class, illustrating respect for each other and the instructor.  Any disruptive behavior will not be allowed.
Cell phones and pagers must be turned off or put on silent mode prior to entering the classroom.  Text messaging during class will result in immediate dismissal.

Course Topic/Dates/Assignments:


Tentative Schedule
(Subject to changes made by the instructor.) 



Chapters Covered

June 4 - M

Introduction, Bonds, Amino Acids

1, 2, 3

June 5 - T

Carbohydrates, Lipids, Protein Structure, QUIZ

9, 10, 4

June 6 - W

Enzymes – Action/ Regulation/ Mechanisms & Inhibitors, QUIZ

5, 6, 7

June 7 - R

Enzymes – Mechanisms & Inhibitors, Allosteric Proteins, QUIZ

7, 8

June 11 - M

EXAM I,  Membrane Structure & Function

11   (EI – 1-7, 9, 10)

June 12 - T

Signal Transduction, Introduction to Metabolism, QUIZ

12, 14

June 13 - W

Digestion, Glycolysis I, QUIZ

13, 15

June 11 - R

Glycolysis II, Gluconeogenesis, QUIZ

15, 16   

June 18 - M

EXAM II,  Preparation for the Citric Acid Cycle

(EII – 8, 11-16), 17

June 19 - T

Citric Acid Cycle II, Electron Transport Chain, QUIZ

18, 19

June 20 - W

Oxidative Phosphorylation, Glycogen Degradation/Synthesis, QUIZ

20, 23   

June 21 - R

Glucose homeostasis & Disease, QUIZ


June 25 - M

Lipid/Fatty Acid Degradation, Lipid/Fatty Acid Synthesis, QUIZ

26, 27

June 26 - T

EXAM III,  Lipid Storage

(EIII – 18-20, 23-24, 26-27)  28

June 27 - W


Molecular Biology Overview, Final Exam Review


ALL TERM PAPERS DUE BY 6/27/12 at the end of class

June 28 - R


Academic Honesty:
Academic integrity is the foundation of the academic community. Because each student has the primary responsibility for being academically honest, students are advised to read and understand all sections of this policy relating to standards of conduct and academic life. Park University students and faculty members are encouraged to take advantage of the University resources available for learning about academic honesty ( or Park University 2011-2012 Undergraduate Catalog Page 93

Plagiarism involves the use of quotations without quotation marks, the use of quotations without indication of the source, the use of another's idea without acknowledging the source, the submission of a paper, laboratory report, project, or class assignment (any portion of such) prepared by another person, or incorrect paraphrasing. from Park University 2011-2012 Undergraduate Catalog Page 93

Attendance Policy:
Instructors are required to maintain attendance records and to report absences via the online attendance reporting system.

  1. The instructor may excuse absences for valid reasons, but missed work must be made up within the semester/term of enrollment.
  2. Work missed through unexcused absences must also be made up within the semester/term of enrollment, but unexcused absences may carry further penalties.
  3. In the event of two consecutive weeks of unexcused absences in a semester/term of enrollment, the student will be administratively withdrawn, resulting in a grade of "F".
  4. A "Contract for Incomplete" will not be issued to a student who has unexcused or excessive absences recorded for a course.
  5. Students receiving Military Tuition Assistance or Veterans Administration educational benefits must not exceed three unexcused absences in the semester/term of enrollment. Excessive absences will be reported to the appropriate agency and may result in a monetary penalty to the student.
  6. Report of a "F" grade (attendance or academic) resulting from excessive absence for those students who are receiving financial assistance from agencies not mentioned in item 5 above will be reported to the appropriate agency.

Park University 2011-2012 Undergraduate Catalog Page 96

Disability Guidelines:
Park University is committed to meeting the needs of all students that meet the criteria for special assistance. These guidelines are designed to supply directions to students concerning the information necessary to accomplish this goal. It is Park University's policy to comply fully with federal and state law, including Section 504 of the Rehabilitation Act of 1973 and the Americans with Disabilities Act of 1990, regarding students with disabilities. In the case of any inconsistency between these guidelines and federal and/or state law, the provisions of the law will apply. Additional information concerning Park University's policies and procedures related to disability can be found on the Park University web page: .


CompetencyExceeds Expectation (3)Meets Expectation (2)Does Not Meet Expectation (1)No Evidence (0)
Uses 7 or more sources Uses 4 to 6 sources Uses 3 to 5 sources Uses fewer than 3 sources 
Identifies and analyzes 7 or more of the items in the assignment Identifies and analyzes 4 to 6 of the items in the assignment Identifies and analyzes 3 to 5 of the items in the assignment Identifies and analyzes fewer than 3 of the items in the assignment 
Assesses the outcomes of 7 or more of the assignment items Assesses the outcomes of 4 to 6 of the assignment items Assesses the outcomes of 3 to 5 of the assignment items Assesses the outcomes of  fewer than 3 of the assignment items 
No factual errors 1 to 2 factual errors 3 to 4 factual errors 5 or more factual errors 
Demonstrates mastery of 7 or more of the assignment items Demonstrates mastery of 4 to 6 of the assignment items Demonstrates mastery of 3 to 5 of the assignment items Demonstrates mastery of fewer than 3 of the assignment items 
Effectively incorporates 7 or more sources to support thesis Effectively incorporates 4 to 6 sources to support thesis Effectively incorporates 3 to 5 sources to support thesis Effectively incorporates fewer than 3 sources to support thesis 
Whole Artifact                                                                                                                                                                                                                                             
No errors in writing conventions 1 to 3 errors in writing conventions 4 to 6 errors in writing conventions 7 or more errors in writing conventions 
Contains no errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation

Contains only 1 error in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation

Contains 2 to 3 errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation Contains 4 or more errors in the following paper format items: -Annual Review of Biochemistry format –Length -Page numbers -Works cited -Internal documentation 
Exhibits an awareness and concern for contemporary items Exhibits an awareness or concern for contemporary items Exhibits some awareness and concern for contemporary items Exhibits no awareness or concern for contemporary items 


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Last Updated:5/23/2012 1:33:53 PM