CENTRAL TEXAS COLLEGE SYLLABUS FOR CHEM 1407 INTRODUCTORY CHEMISTRY II. Semester Hours Credit: 4

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1 CENTRAL TEXAS COLLEGE SYLLABUS FOR CHEM 1407 INTRODUCTORY CHEMISTRY II INSTRUCTOR: OFFICE HOURS: Semester Hours Credit: 4 I. INTRODUCTION A. Introductory Chemistry II is a course covering the fundamentals of organic chemistry and biochemistry with applications from medicine, modern living, and agriculture. This course examines the basic principles, nomenclature, principle reactions, and methods of synthesis of the major classes of physiologically important compounds. B. This course is recommended for nursing students and science majors needing an introductory organic chemistry/biochemistry credit. This course is also recommended for those who will eventually take physiology and/or microbiology courses. This course may or may not be used as an elective. Please check your degree plan to determine the status of this course in your program of study. C. This course is occupationally related and serves as preparation for careers in teaching, research, medicine, and agriculture, among others. D. Prerequisite: Appropriate placement score or completion of the appropriate level of Developmental Studies course. Co-requisite: CHEX 1407 II. LEARNING OUTCOMES Upon successful completion of this course, Introductory Chemistry II, the student will be able to: A. Identify alkanes, alkenes, alkynes, and aromatic compounds by their structures. B. Identify alcohols, phenols, ethers, and halides on the basis of functional groups. C. Identify aldehydes and ketones by their structures. D. Recognize carboxylic acids, esters, amines, and amides and distinguish them from other functional groups. E. Classify carbohydrates on the basis of hydrolysis products, number of carbons and/or functional groups. 10/5/17

2 F. Describe lipids and their uses. G. Describe the structure and properties of amino acids and proteins. H. Describe the chemical nature of an enzyme. I. Describe nucleic acids and discuss the process of protein synthesis. J. Describe the various metabolic pathways and ATP production. III. INSTRUCTIONAL MATERIALS The instructional materials identified for this course are viewable through IV. COURSE REQUIREMENTS AND PROCEDURES A. A student begins to earn his final grade in the course with the first class meeting. This grade will be determined by exam scores, laboratory assignments, and class attendance. Each student is expected to put forth 100% effort to understand the topics presented in this course. B. Preparation for the final exam also begins with the first class meeting. The final exam will be comprehensive. C. The student is expected to attend all lectures and to take adequate notes! If the student so desires, he or she may use an audio recorder to record lectures. D. It is highly recommended that the student read all assigned text material. Homework from the textbook will be assigned but not graded. The student is strongly urged to work all assigned homework problems! Chemistry is a problem-solving science, and the only way to be successful in this course is to spend a significant amount of time outside of class working problems on your own. It takes practice. The success of each student will rely heavily on the taking good lecture notes, reading the text, completing the homework, studying, and getting help when topics are not clear. If something is not clear, take advantage of the instructor s office hours to go by and ask questions. If the office hours are not convenient, an alternate time can be arranged. Chemistry is not a course where one can wait until the last minute and cram for a test. Do not fall behind! E. The student should bring the textbook and all other necessary materials to each class meeting. The student should bring the lab manual, textbook, and all other necessary material to each lab session. CHEM

3 F. Tardies and absences: Regular and punctual attendance is essential for passing this course! Attendance will be checked at the beginning of each class. Do not be late to class! Coming to class late may adversely affect your grade and may result in your PERMANENT removal from the class! A student will be considered tardy if he is not in his seat when attendance is checked at the beginning of class or after any scheduled breaks. A total of five lecture tardies will result in the student s final exam grade being lowered by 10 points. Each additional tardy will result in an additional 2 point deduction on the final exam grade. The student may also face disciplinary action up to and including expulsion from the class. If a student is late to class, it is to his advantage not to enter the room and disrupt the class. If a student is more than 15 minutes late for a lecture or lab, he will be considered absent. It is the student s responsibility to inform the instructor after class if he was tardy so that he will not be counted absent. If a student is late to lab and misses any or all of the pre-lab talk, the instructor may not allow the student to perform the scheduled lab experiment. This may result in a grade of zero for that experiment. The instructor reserves the right to lock the door at the scheduled class start time. Common courtesy is expected; arriving late and/or leaving early are disruptive to the flow of the class and should be avoided. Leaving class and returning to class during class (for whatever reason) is disruptive and should also be avoided. Any one student does NOT have the right to disrupt the learning process of the others in the class. Please advise the instructor before class if you need to leave class early for any reason. G. Students with grades of "D" or less should consult with the instructor voluntarily to ascertain the reason for this low average in the course. This conference should come as soon as possible after the grade reaches this danger point in order that the student can correct his/her problem before it is too late. H. Academic Honesty: All students are required and expected to maintain the highest standards of scholastic honesty in the preparation of all coursework and examinations. Examples of scholastic dishonesty include plagiarism, collusion, and cheating. Students guilty of scholastic dishonesty will be administratively dropped from the course with a grade of F and subject to disciplinary action, which may include suspension and expulsion. Copying any part or all of another student s lab report is considered cheating. Possession or use of a lab report from a previous semester is also considered cheating. I. Students must comply with laboratory safety regulations. In particular, the student must wear safety goggles and apron while working in the laboratory. Each lab period, students found not wearing safety goggles over their eyes will be given one warning. Students found not wearing their safety goggles a second time during that lab period will be dismissed from lab immediately. The student will receive a zero for that lab period. Any zero grades for not wearing safety goggles will not be dropped. Students will not be permitted to wear shorts, CHEM

4 short skirts, short dresses, or sandals in the lab. All attire must come down to the ankles. Do not wear baggy clothing. Tank tops and halter tops are not permitted in lab. Shoulders and entire back must be covered. Only closed toe and closed heel shoes are allowed in the laboratory. The shoe must cover the entire foot. The student is also responsible for the equipment issued him or her. The student will be assigned a drawer which can be locked for protection of the equipment. Required safety goggles and apron may be purchased at the CTC Bookstore. Safety goggles not purchased from the CTC Bookstore must be approved by the instructor. Additional safety rules will be provided on a separate handout. J. Each student must attend only the lab section for which he/she is registered. K. Students must complete laboratory exercises before leaving the laboratory, unless waived by the instructor. Laboratory reports are due at the end of the lab period. Students are required to use proper grammar on all lab reports. All questions should be answered in complete English sentences. Each student must bring his/her own individual lab manual to each lab session. L. There will be no make-up labs for any reason. If a student misses a lab experiment for any reason, he will receive a zero for that experiment. However, the lowest lab experiment grade will be dropped as long as the lowest grade is not a result of violation of lab rules and regulations. Quiz and exam grades will not be dropped. Students may not attend a different lab section to make up missed lab work. M. If a student withdraws from a class or is administratively withdrawn, the student must check with the instructor concerning checking out of lab and returning any checked-out equipment or materials. Failure to comply with the above process may result in a hold being placed on the student s CTC records and transcripts. A grade of F may be assigned to the student s transcript for the course by the instructor. N. Some lab experiments may require the student to write a formal lab report. The format for such reports will be provided on a separate handout. O. Refer to the lab manual for further lab requirements and safety rules. V. LECTURE EXAMINATIONS A. There will be three lecture exams in addition to a comprehensive final exam. No make-up exams will be given for any reason! Pre-examination reviews are usually not given. The exams may include any or all of the following types of questions: problem solving, multiple choice, true-false, fill in the blank, matching, discussion, identification, or essay. B. If a student misses one of the three periodic lecture exams, a grade of zero will CHEM

5 be recorded for that exam. A student cannot miss more than one lecture exam and still pass the course. C. A student who fails to take the final exam will receive a zero for the final and a grade of "F" for the course. D. During exams and quizzes, students may not leave the room. Students may not wear caps, hats, or visors during exams and quizzes. Cell phones and all electronic devices must be turned off and stored out of sight during exams. VI. SEMESTER GRADE COMPUTATIONS Mastering Chemistry Late Nite Labs Lecture Exams Final Exam Total 70 points 160 points 570 points 200 points 1000 points The course grade will be assigned according to the following scale: points = A points = B points = C points = D points = F VII. NOTES AND ADDITIONAL INSTRUCTIONS FROM THE INSTRUCTOR A. Course withdrawal: It is the student's responsibility to officially withdraw from a course if circumstances prevent attendance. Any student who desires to, or must, officially withdraw from a course after the first scheduled class meeting must file a Central Texas College Application for Withdrawal (CTC Form 59). The withdrawal form must be signed by the student. The last day to withdraw from this class is Wednesday, June 28 th. The specific last day to withdraw is published each semester in the Schedule Bulletin. A student who officially withdraws will be awarded the grade of "W" provided the student's attendance and academic performance are satisfactory at the time of official withdrawal. Students must file a withdrawal application with the College before they may be considered for withdrawal. A student may not withdraw from a class for which the instructor has previously issued the student a grade of "F or "FN" for nonattendance. B. Incomplete, Course in Progress Grade: The College catalog states, "An incomplete grade may be given in those cases where the student has completed the majority of the course work but, because of personal illness, death in the immediate family, or military orders, the student is unable to complete the CHEM

6 requirements for a course..." Prior approval from the instructor is required before the grade of "IP" for Incomplete is recorded. A student who merely fails to show for the final examination will receive a zero for the final and an "F" for the course. C. Cellular Phones and other Electronic Devices: Cellular phones and other electronic devices (with or without associated headsets) will be turned off and put away while the student is in the classroom or laboratory. Making and/or receiving cell phone calls or sending and/or receiving text messages during lecture or lab is strictly forbidden. If a student s cell phone rings or makes any noise during an exam, he/she will be considered finished with the exam at that time and must turn it in. If a cell phone rings or makes any noise during lab, the student will be considered finished with the experiment at that time and must turn it in. Students may not use phones or tablets to take pictures or record videos of information in lecture or lab. Failure to adhere to this policy may result in disciplinary action. For emergencies or students on call, see (G) below. D. American s With Disabilities Act (ADA): Disability Support Services (DSS) provides support services for students who have appropriate documentation of a disability. Students requiring classroom, academic or other accommodations are responsible for contacting DSS located on the central campus, Building 111, Room 207, (254) This service is available to all students, regardless of location. Reasonable accommodations will be given through DSS in accordance with American with Disabilities Act (ADA) and Section 504 Rehabilitation Act. Additional information from DSS is available at E. Instructor Discretion: The instructor reserves the right of final decision in course requirements. F. Civility: Individuals are expected to be cognizant of what a constructive educational experience is and respectful of those participating in a learning environment. Failure to do so can result in disciplinary action up to and including expulsion. Minimal civility includes: 1. Being in class on time; 2. Staying in class for the entire class period; 3. Leaving early occurs only after informing the teacher, prior to class, of an unavoidable conflict requiring your early departure (if possible, position yourself close to the door for a minimum disruption to the class); 4. Avoiding such uncivil conduct as talking, sleeping, reading papers/magazines, or working on some other class homework assignment; and 5. Using socially acceptable language in classroom discussions. G. Emergency messages will be delivered to students in classes by the Student Life Office; the Student Life Office number is Emergency messages can CHEM

7 also be given to students through the science department office by calling for delivery to the classroom. NOTE: The procedures stated for this course are subject to change in the event of extenuating circumstances. VIII. COURSE OUTLINE A. Unit 1: Introduction to Organic Chemistry: Hydrocarbons 1. Learning Outcomes: Upon successful completion of the unit, the student will be able to: a. Identify properties characteristic of organic or inorganic compounds. b. Write the IUPAC names and draw the condensed structural and line-angle formulas for alkanes and cycloalkanes. c. Write the IUPAC names for alkanes with substituents and draw their condensed structural or line-angle formulas. d. Identify the properties of alkanes and write a balanced chemical equation for combustion. e. Write the IUPAC names and draw the condensed structural or line-angle formulas for alkenes and alkynes. f. Draw the condensed structural formulas and give the names for the cis-trans isomers of alkenes. g. Draw the condensed structural and line-angle formulas and give the names for the organic products of addition reactions of alkenes. h. Describe the bonding in benzene; name aromatic compounds and draw their line-angle formulas. i. Define the following terms: (1) addition reaction (2) alkane, alkene, alkyne, alkyl group; aromatic compound (3) benzene (4) cis-trans isomers, structural isomers (5) condensed structural formula, expanded structural formula (6) line-angle formula (7) cycloalkane (8) hydration, hydrogenation (9) IUPAC system (10) organic compound (11) substituent CHEM

8 2. Learning Activities: d. Laboratory assignments B. Unit 2: Alcohols, Thiols, Ethers, Aldehydes, and Ketones 1. Learning Outcomes: Upon successful completion of this unit, the Student will be able to: a. Write the IUPAC and common names for alcohols, phenols, and thiols as well as the common names for ethers. Draw their condensed structural or line-angle formulas. b. Describe the classification of alcohols; describe the solubility of alcohols in water. c. Write the IUPAC and common names for aldehydes and ketones; draw their condensed structural or line-angle formulas. Describe the solubility of aldehydes and ketones in water. d. Write balanced chemical equations for the combustion, dehydration, and oxidation of alcohols. Write balanced chemical equations for the reduction of aldehydes and ketones. e. Define the following terms: (1) alcohol, aldehyde, ether, ketone, phenol, thiol (2) Benedict s test, Tollens test (3) carbonyl group (4) dehydration (5) oxidation, reduction (6) primary (1 o ), secondary (2 o ), and tertiary (3 o ) alcohols 2. Learning Activities: d. Laboratory assignments C. Unit 3: Carbohydrates 1. Learning Outcomes: Upon successful completion of this unit, The student will be able to: a. Classify a monosaccharide as an aldose or a ketose, and indicate the number of carbon atoms. CHEM

9 b. Identify chiral and achiral carbon atoms in an organic molecule. Identify D and L enantiomers. c. Identify or draw the D and L configurations of the Fischer projections for common monosaccharides. d. Draw and identify the Haworth structures for monosaccharides. e. Identify the products of oxidation or reduction of monosaccharides; determine whether a carbohydrate is a reducing sugar. f. Describe the monosaccharide units and linkages in disaccharides. g. Describe the structural features of amylose, amylopectin, glycogen, and cellulose. h. Define the following terms: (1) aldose, ketose (2) amylose, amylopectin (3) glycogen, cellulose (4) carbohydrate (5) chiral, chiral atom (6) monosaccharide, disaccharide, polysaccharide (7) enantiomers, stereoisomers (8) Fischer projection, Haworth structure (9) glucose, fructose, galactose (10) maltose, sucrose, lactose (11) glycosidic bond (12) reducing sugar 2. Learning Activities: d. Laboratory assignments D. Unit 4: Carboxylic Acids, Esters, Amines, and Amides 1. Learning Outcomes: Upon successful completion of this unit, the student will be able to: a. Write the IUPAC and common names for carboxylic acids; draw their condensed structural or line-angle formulas. b. Describe the solubility, dissociation, and neutralization of carboxylic acids. c. Write the IIUPAC and common names for an ester; write the balanced chemical equation for the formation of an ester. d. Draw the condensed structural or line-angle formulas for the products from acid and base hydrolysis of esters. CHEM

10 e. Write the common names for amines; draw the condensed structural or line-angle formulas when given their names. Describe the solubility, dissociation, and neutralization of amines in water. f. Write the IUPAC and common names for amides and draw the condensed structural or line-angle formulas for the products of formation and hydrolysis. g. Define the following terms: (1) amine, amide (2) carboxylic acid, carboxylate ion, carboxylate salt (3) carboxyl group (4) ammonium salt (5) ester, esterification (6) hydrolysis 2. Learning Activities: d. Laboratory assignments E. Unit 5: Lipids 1. Learning Outcomes: Upon successful completion of this unit, the student will be able to: a. Describe the classes of lipids. b. Draw the condensed structural or line-angle formula for a fatty acid and identify it as saturated or unsaturated. c. Draw the condensed structural or line-angle formula for a wax or triacylglycerol produced by the reaction of a fatty acid and an alcohol or glycerol. d. Draw the condensed structural or line-angle formula for the products of a triacylglycerol that undergoes hydrogenation, hydrolysis, or saponification. e. Draw the structure of a phospholipid containing glycerol or sphingosine. f. Draw the structures of steroids. g. Describe the composition and function of the lipid bilayer in cell membranes. h. Define the following terms: (1) steroid, cholesterol (2) lipids, fat, oil, wax (3) lipid bilayer, fluid mosaic model CHEM

11 (4) phospholipid, glycerophospholipid (5) lipoprotein, triacylglycerol (6) fatty acid, monounsaturated fatty acid (7) saturated fatty acid, unsaturated fatty acid (8) polyunsaturated fatty acid (9) prostaglandin (10) sphingomyelin (11) hydrogenation 2. Learning Activities: d. Laboratory experiments F. Unit 6: Amino Acids, Proteins, and Enzymes 1. Learning Outcomes: Upon successful completion of this unit, the student will be able to: a. Classify proteins by their functions. Give the name and abbreviations for an amino acid and draw its structure at physiological ph. b. Draw the condensed structural formula for a peptide and give its name. Describe the primary structure of a protein. c. Describe the secondary, tertiary, and quaternary structures for a protein; describe the denaturation of a protein. d. Describe enzymes and their role in enzyme-catalyzed reactions. e. Describe the effect of temperature, ph, and inhibitors on enzyme activity. f. Define the following terms: (1) amino acids, acidic and basic amino acids (2) polar and nonpolar amino acids (3) peptide, peptide bond (4) N-terminus, C-terminus (5) protein, primary structure (6) secondary, tertiary, and quaternary structure (7) hydrogen bond, disulfide bond, salt bridge (8) alpha helix, beta pleated sheet (9) collagen, triple helix (10) optimum ph, optimum temperature (11) denaturation (12) hydrophilic interaction, hydrophobic interaction (13) enzyme, substrate, enzyme-substrate complex (14) activity, active site (15) inhibitor, competitive inhibitor, noncompetitive inhibitor CHEM

12 2. Learning Activities: (16) isoenzymes, induced-fit model d. Laboratory assignments G. Unit 7: Nucleic Acids and Protein Synthesis 1. Learning Outcomes: Upon successful completion of the unit the student will be able to: a. Describe the bases and ribose sugars that make up the nucleic acids DNA and RNA. b. Describe the primary structure of RNA and DNA. c. describe the double-helix of DNA; describe the process of DNA replication. d. Identify the different types of RNA; describe the synthesis of mrna. e. Use the genetic code to write the amino acid sequence for a segment of mrna. f. Identify the type of change in DNA for a point mutation, a deletion mutation, and an insertion mutation. g. Describe the preparation and uses of recombinant DNA. h. Describe the methods by which a virus infects a cell. i. Define the following terms: (1) anticodon, base, codon (2) complementary base pairs, deletion mutation (3) DNA, double helix, genetic code (4) genetic disease, mutation, insertion mutation (5) nucleic acid, nucleoside, nucleotide (6) phosphodiester linkage, point mutation (7) polymerase chain reaction, primary structure (8) recombinant DNA, replication (9) RNA, mrna, rrna, trna (10) transcription, translation (11) virus, retrovirus 2. Learning Activities: d. Laboratory assignments. CHEM

13 H. Unit 8: Metabolic Pathways and ATP Production 1. Learning Outcomes: Upon successful completion of the unit the student will be able to: a. Explain the three stages of catabolism and the role of ATP. b. Identify the sites and products of digestion for carbohydrates, triacylglycerols, and proteins. c. Describe the components and functions of the coenzymes NAD +, FAD, and coenzyme A. d. Describe the conversion of glucose to pyruvate in glycolysis and the subsequent conversion of pyruvate to acetyl CoA or lactate. e. Describe the oxidation of acetyl CoA in the citric acid cycle. f. Describe electron transport and the process of oxidative phosphorylation; calculate the ATP from the complete oxidation of glucose. g. Describe the metabolic pathway of Β oxidation; calculate the ATP from the complete oxidation of a fatty acid. h. Describe the reactions of transamination, oxidative deamination, and the entry of amino acid carbons into the citric acid cycle. i. Define the following terms: (1) acetyl CoA, aerobic, anaerobic (2) anabolic reaction (3) ATP, ATP synthase (4) beta (β) oxidation, catabolic reaction (5) chemiosmotic model, citric acid cycle (6) coenzyme A (CoA), decarboxylation (7) digestion, electron transport (8) FAD, glycolysis, metabolism (9) ketone bodies (10) oxidative deamination, oxidative phosphorylation (11) transamination, urea cycle 2. Learning Activities: d. Laboratory assignments. CHEM