CHEM 2414 Basic Organic and Biochemistry  Lec. 4 Lab. 0 Cr. 4

 

 

Spring 2006    Section: [21]        Time/Day: 4:00-7:50 p.m. Th           Room: SCI 203       

 

Instructor: Mr. John Taylor

Instructor’s Office:  Science  202       Office Phone: (318) 427- 44357

Cell Phone: (813) 361-4379 (Monday, Fridays and weekends)

 Email: jtaylor@lsua.edu  alternate jtaylor@lsua.info

 

MAPS Division Office: 473-6591

 

Required Text:

General, Organic, and Biochemistry

Katherine  J Denniston, TOWSON UNIVERSITY 
Joseph  J Topping, TOWSON UNIVERSITY 
Robert L Caret, SAN JOSE STATE UNIV 

Hardcover,  896 pages

©2004, ISBN 0072469056

Dennison, Topping, Caret

  4th Edition;

 

Course Description

(Also offered as BIOL 2414).  Prerequisite: CHEM 1202.  A presentation of:

1) the fundamental reaction capabilities of organic molecules and their functional groups, and

2) the basic principles of physiological chemistry with an emphasis on their application to problems encountered in the practice of nursing.

   Four hours of lecture each week.

 

Table of Contents

 

General Chemistry  (assumed prerequisite)

1 Chemistry: Methods and Measurement

2 The Composition and Structure of the Atom

3 Elements, Atoms, Ions, and the Periodic Table

4 Structure and Properties of Ionic and Covalent Compounds

5 Calculations and the Chemical Equation

6 States of Matter: Gases, Liquids, and Solids

7 Reactions and Solutions

8 Chemical and Physical Change: Energy, Rate, and Equilibrium

9 Charge-Transfer Reactions: Acids and Bases and Oxidation-Reduction

10 The Nucleus, Radioactivity, and Nuclear Medicine

 

Organic Chemistry  (all chapters covered)

11 An Introduction to Organic Chemistry: The Saturated Hydrocarbons

12 The Unsaturated Hydrocarbons: Alkenes, Alkynes, and Aromatics

13 Alcohols, Phenols, Thiols, and Ethers

14 Aldehydes and Ketones

15 Carboxylic Acids and Carboxylic Acid Derivatives

16 Amines and Amides

 

Biochemistry  (all chapters covered)

17 Carbohydrates

18 Lipids and Their Functions in Biochemical Systems

19 Protein Structure and Function

20 Enzymes

21 Carbohydrate Metabolism

22 Aerobic Respiration and Energy Production

23 Fatty Acid Metabolism

24 Introduction to Molecular Genetics

 

Appendixes

A A Review of Mathematics Applied to Problem Solving in Chemistry

B Table of Formula Weights

C Determination of Composition and Formulas of Compounds

D Stereochemistry and Stereoisomers Revisited

E Lipid-Soluble Vitamins

F Water-Soluble Vitamins

G Energy Yields from Aerobic Respiration: Some Alternatives

H Minerals and Cellular Function

 

                    

Course Objectives

Students will:

1.         Understand the implications of structure and functional groups on reactivity, physical behavior and chemical behavior of organic molecules.

2.         Identify the typical uses of the various classes of molecules.

3.         Understand the outcome of reactions of the various functional groups.

4.         Understand the principles of stereochemistry and their application to reactivity and biological behavior.

5.         Be able to properly name organic molecules and draw structures from a name.

6.         Recognize biomolecules and reactions typical for them.

7.         Understand the various roles of biological molecules in living systems.

8.         Understand metabolism and regulation of metabolism.

 

Detailed Topical Outline

0.        Review of Chemical Bonding, Molecular Geometry, Acids & Bases, pH

1.         Carbon chains, bonding, and model building

2.         Functional groups: nomenclature, physical and chemical properties, reactions.

a.         Saturated hydrocarbons

b.         Unsaturated hydrocarbons and aromatics

c.         Alcohols, phenols, thiols and ethers

d.         Aldehydes and ketones

e.         Carboxylic acids and derivatives

f.          Amines and amides

3.         Biomolecules: Structure and Function

a.         Carbohydrates

b.         Lipids

c.         Amino acids and proteins

d.         Enzymes

e.         Bases, nucleotides, RNA and DNA

4.         Metabolism

a.         Carbohydrates

b.         Aerobic respiration and energy

c.         Lipid catabolism

d.         Amino acid catabolism

5.         An introduction to molecular genetics

a.         Replication

b.         Transcription

c.         Translation

 

This synthesis of this molecule changed Organic Chemistry:

Do you know the story?

 

 

ATTENDANCE:

Students are expected to attend class and will be responsible for all material presented. Pretest quizzes will be administered during every class which is not a scheduled exam day. These quizzes may not be made up outside of class time. .  Each class attended will be worth two points. There are 15 Thursday night class in this term, plus the week of finals. One point is earned for the first two hours, and a second point for the last two hours

MAKE-UP POLICY:

Make-up exams are usually not given. In the event of an unavoidable absence (jury duty, hospitalization, incarceration, and death in the immediate family), you must contact the instructor, no later than, the day of the exam in order to discuss what arrangements might be made. A message must be left on the instructor's e-mail (jtaylor@lsua.edu ) if the instructor cannot be reached. If a makeup is allowed, it must be completed prior to return of the exam papers completed by the student attending. Missed exams will otherwise count as 0 points. Student who takes the test on the assigned test day are guaranteed to receive their graded exam on or before the next exam day after completion of the new exam, otherwise the student will be assigned a 100% grade for the un-graded paper.

 

The instructor will discuss with the class those that are sick with colds, flu, and other common illnesses which will hinder their performance on an exam. On an individual basis he may allow make-up in the test center on exam days. Also sick children, car and transportation problems will be dealt with on an individual basis as well as those that just panic on test days or have back-to-back exams on the same day.  But the rule is generally no makeup on exam day except for the instructor’s discretion . Student abuse of absences on exam day may result in strict enforcement of the no-makeup policy with only the unavoidable exceptions above allowed.

 

LSUA has a testing center. It is located in the Student Center-Room 204. The web site for the center is: http://testing.lsua.edu/ . To use the testing center for makeup, the student must call for an appointment at (318) 427-4492 and speak with Robin Arnold. You may also email her at ranold@lsua.edu to also setup an appointment. Your instructor must first place the exam in the TC before you arrange an appointment. Watch your email for makeup directions as they will change from Module to Module.

 

GRADING:

Exams mainly determine a student's letter grade. There will be 1000 points possible in the course. The four (maybe five) hourly exams are worth 100-200 points (150 point average) each for a total of 600 points.  The ACS Organic/Biochemistry final test is worth 50 points, and the comprehensive final exam (100 questions) is worth 150 points. The approximate grade distributions are:

 

900 - 1000 points = A                Final Exams         20%
800 -   899 points = B                Four (Five) Exams           60%
700 -   799 points = C                  Homework                      12% (online, notebook)
600 -   699 points = D                  e-Instruction                       5%

                                       Attendance                            3%

The instructor reserves the right to make necessary modifications or adjustments to the syllabus and grading during the semester as necessary, except that the five % distributions will not be changed: 60% Tests, 20% Final Exam Activities, 12% Homework , e-Instruction 5% and 3% attendance, but the total points may vary or other factors inserted to maintain the % distributions.

 

At anytime the student may calculate her/his current by accessing:

http://www.lsua.us/chem2414/14grdcal.html

 

The instructor will not drop the lowest test grade. Don’t ask! Instead a student may prove comprehension of the material at a later time through post testing as arranged with the instructor. A student making an A up to the final MUST take the final to earn a final grade of A, etc.

 

Exams will be based on material covered in the lecture as well as reading assignments outlined on the course calendar and grading outline.

 

READING ASSIGNMENTS AND RELATED PROBLEMS:

Stated on the course calendar, grading outline samples and/or worksheets/handouts.

 

 

WEB-SITE:

 This course uses the lsua.us or lsua.info web site giving you access to course information. This course also uses Desire2Learn (D2L) for group Email, to list the Modular and Final Exams scores, and check-your-final grade through the Internet (Note: The course materials are not currently on D2L) Access the D2L web site at: http://www.lsua.edu. Your username is your first, middle and last initial (all in caps) followed by the last 4 digits of your student ID number. Your password is your student identification number. The lsua.info or lsua.us does not require a password to sign in.

 

Homework:

The sample pretest quizzes posted on the grading outline or handed out at the start of a Chapter are not homework to be turned. They are for the student’s self practice and for the student to understand what the instructor expects from each section of the textbook and his lectures. The Pretest is an actual page of a previous exam. The grading outline may be found at: http://www.lsua.info/chem2414/14grdS06.html

 

The instructor has links to online homework which the student will complete and submit electronically on the homework outline form:

http://www.lsua.us/chem2414/14hwkS06.htm (not posted as of 1/19)

 

The instructor describes paper and pencil homework for some sections not available on the Internet on the sample pretests and/or on the homework grading outline. The student is to keep this homework in a notebook and/or a folder. This notebook/folder may be requested at anytime to be turned in on exam days. Homework is to be completed prior to an exam day. The student will grade her/his own homework and keep the homework scores on the homework grading outline in the homework folder. Sometimes the instructor will request only that exam’s grading form in order to post the homework scores on D2L for that Exam’s assignments. Paper and Pencil Homework will include all end of chapter exercises-all odd number questions plus one even numbered problem from each section for Part L of the End of Chapter Exercises section of each chapter on each exam,

 

The homework outline has more than 120 possible points, but only 120 points maximum may be earned for no more than 12% of the final grade..

 

The first paper and pencil homework is to draw and name all the different isomers of:

1. C6H14 and C7H16 with C8H18 as makeup

2. C5H11Br with C6H13Br as makeup

3. C4H8Br2 with C5H10Br2 as makeup

 


Daily Pretest Quizzes (optional):  

Pretest quizzes may be administered before, during, and/or after every class which is not a scheduled exam day. These pretest quizzes may not be made up outside of class time, unless directed by the instructor to complete the pretest in the test center during an assigned period of time. Scored pretest quizzes are NOT recorded in the instructor’s grade book or on D2L, but must be attached to the Chapter Exam the day of the exam to receive the pretest grade. The student will skip that section of the chapter exam that is pre-tested successfully and mark the score on the first page’s test outline.  The Pretest scores may be recorded on the attendance sheet, but only for your instructor’s sense of current levels of class achievement. The instructor only records Chapter Exam totals and the Final Exam in his grade book and on D2L. Multiple choice, Part M, True-Fall, Part T and vocabulary, Part K sections of chapters are only tested on exam day and are never pre-tested nor post-tested.  

 

Do Not Staple the two Chapter Exams together as they are graded separately, listed on D2L separately, and returned separately after the exam day. Please staple carefully as directed. Mixing the chapter papers on Exam day may result in a lower grade.  The pretests may NOT be used during the exam! Samples of each section (pretest) of each exam may be found on the grading outline on the web site.

 

Pre-testing is a privilege not a right!

 

This class has a scheduled class in the room prior to our class at 2:30-3:45 pm Tuesday and Thursday. There is no class in the room Sc 204 prior to our class. Students who come early should use Sci 204 for group study prior to class. At 3:50 pretest will be made available in Sci 204. Students who are late to class (after 4:00-like 4:01), will not be allowed to pretest once the pretest papers are initially distributed at the beginning of the class. They will have to stay after class to complete the pretest or do the pretest during break(s). Pretests take no more than 5 to 10 minutes of actual class time and late students will have to turn in their papers when the instructor calls time, which may result in a lower score. Students may begin their pretests as early as 3:45 pm on Thursday and may also take as long as necessary on Thursday after class.

Link to: Chem 2414 Grading Outline

 

E-Instruction (option):

 

During a scheduled class, after going through the lecture on the assigned chapters via many modalities of teaching including Internet web sites, the instructor will utilize either the last 10 minutes or the first 10 minutes of class to go through the power point for the assigned chapter as a review. The power point presentation for each chapter which is posted on the Internet menu page at:

http://www.lsua.us/chem1001/01pptmenu.html

 

However, multiple choice questions will be inserted into these power points which will require all students to answer via the instructor’s e-Instruction system (keypads). Each correct response will be worth one point, while an incorrect response will count zero points. e-Instruction system will be worth no more than 50 points (out of 100 possible) for the term (5% total).

 

Students must read and complete their assignments before coming to class each day. .( If e-Instruction is not utilized during the classes, the exam total will expand to 650 points or 65% of the final grade.) . Students are expected to get 50% correct on each day’s e- Instruction questions. During the term, the instructor may pretest a section of the multiple choice for the course using the e-Instruction system where the responses will count 1 point each of the 10 to 15 points assigned to multiple choice for that Module.

 

Major Exams:

 Four exams will be administered in class on the approximate exam days listed below. Each exam is a minimum of two chapters. Exam#4 is composed of portions of many of the biochemistry chapetrs. These exams will constitute 60% of the student’s final grade or 600 points total. The grading outline for these exams may be found at: http://www.lsua.us/chem2414/14grdS06.htm

Exams  (Approximate Date):


Exam 1 (Week 4: Th, Feb 9):  Chapters review chapters plus 11-12
Exam 2 (Week 7: Th, Mar 2):  Chapters 13-14
Exam 3 (Week 11: Th, Mar 31):   Chapters 15-16
Exam 4 (Week 14: Th, Apr 21):  Chapters 17-18-19

Exam 5 (Week 16: Th, May 4):  Highlights of Chapters 20-24

 

ACS Organic Biochemistry Exam (Week 17: Th: May 11)


Final Exam (Week 17: Thursday, May 11 4:00-7:50 pm): All topics-Multiple Choice

 

ACS Organic-Biochemistry Exam:

On the last day of the class, this test will count 50 total points (5%) of the final exam grade based on the percentile rank divided by 2. Percentile ranks are included in the norms of the exam and the instructor will email the class with the percentile ranks prior to the last day of class.

 

 

WEB-SITE:

This course uses the Desire2learn web site giving you access to course information, Email, and check-your-grade through the Internet. Access the web site at: http://lsua.edu. Your username is your first, middle and last initial (all in caps) followed by the last 4 digits of your student ID number. Your password is your student identification number.

 

 

OFFICIAL OFFICE HOURS:    


Monday:       12:00-1:00 p.m.

Tuesday:       1:00-2:30; 3:30-4:00; (4:00-5:00Travel to Airpark); 5:00-6:00 @AP

Wednesday: 12:00-1:00; 3:00-4:00;

Thursday:      1:00-2:30; 3:45-4:00; 7:50-8:05 p.m.

Friday:           10:00-11:00 a.m.; 12:00-1:00 p.m.

 (also Unofficial – anytime I am in my office)

 

Email Requirement:


Each student should send the instructor an email during the first week from both your lsua email account and an outside email account for a backup contact. Be certain you put in subject box:

14: first email

 

Tell me about yourself. Why are you taking this course? Did you have high school chemistryor CHEM 1001? When? What grades did you make? Where do you live? What are your telephone numbers? What is your external email address which can serve as a backup to LSUA assigned email. Always begin the subject of each email with 14:. Subject-less emails will be deleted

 

Instructor’s Right to Change or Modify Grading Procedures:

This instructor reserves the right to make changes in this syllabus whenever he feels it is appropriate to do so. The instructor reserves the right to modify or change the grading progress as the course proceeds. Any additional course assignments will substitute for deleted items.  Some may also be modified if not deleted.  The instructor will not add major examinations as a modification and maintain the four exam plus final requirements

 

Students with Disabilities:

Qualified students with documented disabilities are eligible for physical and academic accommodations under the American Disabilities Act and Section 504 of the Rehabilitation Act of 1973.  Students requesting accommodations should contact this professor during the first week of class with official documentation of disability

 

Withdrawal Policy:

Students will be allowed to withdraw from this class any time during the semester through Tuesday, March 28, 2006 and will receive a grade of “W”.  After this date a letter grade will be assigned reflecting the student’s performance in the class.  Students failing to attend class for two consecutive weeks are subject to withdrawal by the instructor according to LSUA policy.

 

Academic Misconduct:

Academic misconduct or dishonesty such as cheating and plagiarism is not permitted.  Suspected cases may be reported to the LSUA administration and may result in failure of an assignment or exclusion from the class. Also, the instructor reserves the right to reassign work to students if the instructor senses/suspects the work submitted is not the work of the student. (No questions asked-The instructor may tell the student to reattempt the work to earn the daily quiz grade or examination grade or the instructor may assign a zero if second request is made).

 

Classroom Etiquette:

Students are expected to conduct themselves as adults in the classroom showing respect to their classmates. Only persons registered for this class are permitted in the classroom.  As a courtesy to the instructor and your fellow classmates, cellular telephones and pagers should be cut off before entering the classroom or laboratory. Likewise, the instructor sometimes forgets to shut his down at the beginning of class, so hopefully someone sitting close to the front may remind the instructor with a hand gesture for him to check his phone,

 

 

Studying: 

Chemistry is a cumulative subject. Concepts learned in the first assigned chapter will be applied in the second, etc. The final exam is cumulative. In order to do well in this course, it is essential to study and work problems.  The following is a list of study suggestions

1)     Read the text chapters before the material is covered in class.

2)     Take good notes and review them daily.

3)     Work all assigned homework problems at the end of the assigned chapters.  Do not get behind!!!!!!

4)     Work the practice exams that are available on the web site without looking at the answer key.

5)     Use the interactive web site for studying.

6)     Utilize Study Groups

 

Procedures to Evaluate these Objectives

1.         In-class and homework  problems after concept presentation

2.        In class e-presentation system responses

3.         In-class exams with pretests

4.         Cumulative final exam

 

 

Instructor Requested Information:

 During the first week of class, the student will fill out a 4x6 file card. The instructor has provided a sample below with his personal data and his block scheduled time. 

 

Data Card (4x6 file card):       Front Side (Personal Data)

 --------------------------------------------------------------------------------------

 

Name:            John Taylor                                  CHEM 2414

Office:            Science 202                

Address:         1011 B South Daoust Drive

   Alexandria, LA 71303                 

Telephone:   427-4435 (office)

      Cell: 813 361-4379 (cell after 9pm Tues-Fri- all day Mon & weekends)    

E-MAIL :    jtaylor@lsua.edu  or jtaylor@lsua.us

 

 Employment:       LSU-Alexandria since 8/15/05

                                   Full time chemistry faculty

 

Major: Instructional Technologies        Minor: Chemical Education

Long Term Goal: Educational Software Developer

                             

                             Chemistry Background:  High School chemistry completed: yes

                                                                             CHEM 1001 Grade A

                                                                          CHEM 1201 no

 

                                Software/Computer Literacy: WP: Word

 

                                Home Computer: yes    Internet ISP: yes or have access

 

                              Why are you taking this course? Required for BSN nursing program

 --------------------------------------------------------------------------------------

Put your class and work schedule on the back side of the data card

See next page!

Class Schedule

 

Number          Section                       Room              Time                           Days

CHEM 1001  2                                  Sc 203                        11:00-11:50               MWF

CHEM 1001  4                                  Sc 203                        2:30-3:45                   TTh

CHEM 1001  21                                Air Park                      6:00-8:50                   T

CHEM 2414  21                                Sc 203                        4:00-7:50                   Th

PHSC 1001   4                                  Sc 118                        11:00-12:15               TTh

PHSC 1003   1                                  Sc 208                        1:00-2:50                   W

PHSC 1003   2                                  Sc 208                        1:00-2:50                   W

 

Class/Office Matrix:

 

My Schedule matrix: Please make your own. I have 10 hours of office hours, you must find 10 hours in you weekly matrix for studying chemistry:

 

 

Monday

Tuesday

Wednesday

Thursday

Friday

8:00

 

 

 

 

 

8:30

 

 

 

 

 

9:00

 

 

 

 

 

9:30

 

 

 

 

 

10:00

 

 

 

 

office

10:30

 

 

 

 

office

11:00

CHEM1001-2

PHSC1001-4

CHEM1001-2

PHSC1001-4

CHEM1001-2

11:30

CHEM1001-2

PHSC1001-4

CHEM1001-2

PHSC1001-4

CHEM1001-2

12:00

office

PHSC1001-4

office

PHSC1001-4

office

12:30

office

 

office

 

office

1:00

 

office

1003-1 & 2

office

 

1:30

 

office

1003-1 &2

office

 

2:00

 

office

1003-1 & 2

office

 

2:15

 

office

1003-1 & 2

office

 

2:30

 

CHEM1001-4

1003-1 & 2

CHEM1001-4

 

3:00

 

CHEM1001-4

Office*

CHEM1001-4

 

 3:30

 

CHEM1001-4

Office*

CHEM1001-4

 

 

 

 

*1:00-2:00

office

 

 4:00

 

 

Weeks #1-#4

CHEM2414-21

 

4:30

 

 

 

CHEM2414-21

 

5:00

 

office(AP)

 

CHEM2414-21

 

5:30

 

office(AP)

 

CHEM2414-21

 

6:00

 

CHEM1001-21

 

CHEM2414-21

 

6:30

 

CHEM1001-21

 

CHEM2414-21

 

7:00

 

CHEM1001-21

 

CHEM2414-21

 

7:30

 

CHEM1001-21

 

CHEM2414-21

 

8:00

 

CHEM1001-21

 

office

 

8:30

 

CHEM1001-21

 

 

 

9:00