Syllabus

Summer 2009
Institute of Chemistry
College of Science
University of the Philippines
Diliman, Quezon City 1101
Course Syllabus and Schedule

Course number:
Chem 40
Course Title:
Introduction to Biochemistry
Course credit:
3 units
Class schedule:
7 9 AM, MTWThF, PH 1209
Course Pre-requisites: Chem 17 or Chem 26 and Chem 26.1 AND Chem 31 and Chem 31.1
Instructor: Evangeline C. Amor

Consultation Hours: 12 2 PM
MTWThF, PH 1210
E-mail consultation is encouraged
E-mail: ecamor@up.edu.ph
Course description: The course focuses on the discussion of the structure-function relationship of the four biomolecules: proteins, nucleic acids, carbohydrates
and lipids and their metabolism.
Course goals:
Understand and appreciate the relationship of the structure and chemistry of the four biomolecules to their function including their
metabolism and regulation.
Course Objectives:
1.
2.
3.
4.
to compare the basic biochemical principles in prokaryotes and eukaryotes.

to illustrate the structure-function relationship of biomolecules in living systems.
to describe metabolism, its organization and regulation.
to give examples of the applications of biochemistry in related fields.
Main reference: Biochemistry, 5th edition by Campbell and Farrell

Other References: Biochemistry by Garrett and Grisham; Biochemistry by Mathews and Van Holde;
Principles of Biochemistry by Lehninger; Biochemistry by Horton.
Reminders:
1.
2.
3.
4.
On the 5th meeting, please submit four (4) bluebooks with your name written at the back.
Prepare a Quiz bluebook.
Read ahead on the topics to be covered.
Short quizzes will be given regularly on the topics covered.
Evangeline Amor, 2009
Summer 2009
Course schedule
Day 1
14 Apr
Day 2
15 Apr up to
Day 5
20 Apr
Day 6
21 Apr up to
Day 8
23 Apr
Course objective
Topic and/or activity
To distinguish living things from inanimate things;
Overview of the course
To describe the properties of biomolecules;
To recall the properties of water and relate it to Introduction
its role in (reading assignment)
biological systems; to review thermodynamic principles
A. The molecular logic of life
and relate it to biological systems
B. Biomolecules
C. Cells
D. Water
E. Thermodynamics of Biological Systems
Reference and/or requirement

Course Syllabus
To describe the properties of amino acids, their analysis

and separation; To draw the structural patterns observed
in proteins; To compare the different levels of protein
structure; To describe protein isolation and analysis; To
relate the biological function of sample proteins to their
structure.
Amino Acids
Proteins
Levels of Protein Structure
Examples of Proteins
A. Keratin; Collagen; Silk Fibroin
B. Myoglobin; Hemoglobin; Immunoglobulins
Protein Purification & Characterization Techniques
Group Activity 1 Amino Acid Language
Chapters 3 4 of textbook
Get to know each other; Discuss course description,

policies and requirements;
To describe the properties of enzymes; To relate the
function of enzymes to their structural properties; To
analyze enzyme action by describing their kinetics; To
compare the different types of enzyme inhibition; To
analyze the mechanism of catalysis; To analyze the
factors that influence enzyme activity; To discuss an
example of a serine protease (chymotrypsin) and
describe its mechanism of action
Enzymes and Enzyme Kinetics

A. Introduction to enzymes types and properties
B. How enzymes work
C. Enzyme kinetics
1. Michaelis-Menten equation
2. Line-Weaver Burk equation
D. Enzyme inhibition
Competitive
Non-competitive
Uncompetitive
E. Mechanisms of enzyme action
F. Example of Enzyme: Serine proteases
Chapter 6 of textbook
G. Coenzymes
Day 9
24 Apr
Textbook
Chapters 1 2 of textbook
Part of Chapter 14
Group written output
To describe the functions of co-enzymes
Group Activity 2 Enzyme jargon

Group Activity 3 Enzyme Inhibition Drama
Problem Set Enzyme Kinetics
Group written output

Group output
Individual written output
To describe the structure, properties and chemistry of

nucleotides and nucleic acids
Nucleotides and Nucleic Acids

Nucleic Acid Structure and Properties
Summer 2009
Course schedule
Day 10
27 Apr up to
Day 13
30 Apr
Course objective
To discuss and describe the processes that comprise the

central dogma of biology in molecular terms

The Central Dogma
A. DNA Replication & Repair
B. Transcription
C. Translation
Techniques in Nucleic Acid Analysis (reading
assignment)
In Focus: Viruses and Cancer (reading assignment)
Group Activity 4 From Genes to Proteins
Group Activity 5 WhoDunIt
28 Apr
(Tuesday)
1 May
Labor Day No Classes

To analyze the thermodynamics of metabolism; to
describe metabolism
To recall structures and characteristics of
monosaccharides and disaccharides; To describe the
propertied of carbohydrates; To compare the structure
and function of different glycoconjugates; To relate the
function of sample carbohydrates to their structure and
properties
Day 14
04 May up to
Day 18
08 May
To discuss in detail carbohydrate metabolism and its
regulation; To discuss in detail the main oxidative
pathway and its connection to cellular respiration
including their regulation;
08 May
Group output
Group output
1st Long Exam
Day 11
Day 16
06 May
Introduction to Metabolism: Types, Pathways and

Bioenergetics
Carbohydrates
A. Introduction
Review of writing structures; isomerism; glycosidic
bond
B. Monosaccharides and Disaccharides
Glucose, fructose, galactose, mannose, etc.;
reactivity of monosaccaharides; sucrose, lactose,
maltose, cellobiose; Polysaccharides (structurefunction); cellulose and its properties; starch;
amylose; amylopectin; glycogen; chitin;
peptidoglycans; mucopolysaccharides;
proteoglycans; glycoproteins; glucosaminoglycans
Carbohydrate Metabolism: Glycolysis; Gluconeogenesis;
Glycogen Metabolism; PPP
The TCA Cycle
The ETC & OP
Group Activity 6 Carbohydrate Puzzle
Chapter 15 of texbook
Chapter 20 of Textbook
Group output
2nd Long Exam

Last day of dropping
(Reminder: Dont forget to submit the instructors copy of the dropping slip)
Summer 2009
Course schedule
Day 21
13 May
Course objective

3 Long Exam
(Wednesday)
To describe and compare the structure, properties, and

function of different lipid classes;
Day 19
11 May up to
Day 22
14 May
Day 23
15 May up to
Day 24
18 May
Day 25
19 May
rd
To describe the structure, properties and characteristics

of biological membranes; To compare different transport
processes
To discuss in detail lipid metabolism with emphasis on
fatty acids and cholesterol
To describe protein and nucleic acid metabolism and its
regulation; To relate the different metabolic pathways
discussed and see its unity
Protein Metabolism
Nucleic Acid Metabolism
Integration of Metabolism
Group Activity 7 Metabolic Disorders
Last day of classes
4th Long Exam (Wednesday)
5 Minute Group Report
FINAL EXAM
(Either 21 May or 22 May)
To be Announced
Grading Scheme:
Quizzes
4 Long Exams
Final Exam
Total:
Lipids
Types and Properties of Lipids
Saturated and unsaturated fatty acids; Eicosanoids and
isoprenoids; Steroids and sterols;
Sphingophospholipids; Glycerophospholipids
Membranes and Membrane Transport
Composition and Properties; Kinds of Transport;
Membrane Potential
Lipid Metabolism
Fatty Acid Synthesis & Degradation; Ketone Body
Formation; Cholesterol Synthesis
Grading Scale:
100
400
150
650 pts
1.0
1.25
1.5
1.75
2.0
92 100
87 91
83 86
79 82
75 78
2.25
2.5
2.75
3.0
4.0
70 74
65 69
60 64
55 59
50 54
Exemption grade provided that all 4 long exams are passed.

Policies:
1. Students with 5 or more absences will get a grade of 5.0 unless they drop the course.
2. No make-up quizzes will be given.
3. Students who miss one exam will get a score of zero in that exam.
4. Students who miss two exams will get a grade of 5.0.

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Summer 2009

Course Syllabus and Schedule

Instructor: Evangeline C. Amor

to compare the basic biochemical principles in prokaryotes and eukaryotes.

Main reference: Biochemistry, 5th edition by Campbell and Farrell

Evangeline Amor, 2009

Reference and/or requirement

To describe the properties of amino acids, their analysis

Get to know each other; Discuss course description,

Enzymes and Enzyme Kinetics

To describe the functions of co-enzymes

Group Activity 2 Enzyme jargon

Group written output

To describe the structure, properties and chemistry of

Nucleotides and Nucleic Acids

Evangeline Amor, 2009

To discuss and describe the processes that comprise the

Topic and/or activity

Labor Day No Classes

1st Long Exam

Reference and/or requirement

Introduction to Metabolism: Types, Pathways and

2nd Long Exam

Evangeline Amor, 2009

Topic and/or activity

To describe and compare the structure, properties, and

Reference and/or requirement

To describe the structure, properties and characteristics

Exemption grade provided that all 4 long exams are passed.

Evangeline Amor, 2009

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