MATHEMATICS (TURKISH, PHD)
PhD TR-NQF-HE: Level 8 QF-EHEA: Third Cycle EQF-LLL: Level 8

Course Introduction and Application Information

Course Code Course Name Semester Theoretical Practical Credit ECTS
CHE3006 Biochemistry Fall 3 2 4 6
The course opens with the approval of the Department at the beginning of each semester

Basic information

Language of instruction: En
Type of course: Departmental Elective
Course Level:
Mode of Delivery: Face to face
Course Coordinator : Prof. Dr. GÜLAY BULUT
Course Objectives: This course is designed as a useful background for many areas of scientific study. The course topics include the principles and applications of the organic structure of living systems. Course objectives are to develop a sufficient background for the engineering students who wish to study more advanced biochemistry topics,provide students with opportunities to develop in basic biochemistry laboratory techniques, provide familiarity with the requirements for scientific writing, as exemplified by a short lab report, to develop the ability to think scientifically and evaluate information critically.

Learning Outputs

The students who have succeeded in this course;
The students who succeeded in this course will be able to;
1) demonstrate foundational knowledge of biochemistry and competence in laboratory techniques.
2) research, understand and cite scientific literature.
3) identify the five classes of polymeric biomolecules and their monomeric building blocks.
4) explain the specificity of enzymes (biochemical catalysts), and the chemistry involved in enzyme action.
5) explain how the metabolism of glucose leads ultimately to the generation of large quantities of ATP.
6) describe the structure of DNA, and explain how it carries genetic information in its base sequence.
7) describe DNA replication.
8) describe RNA and protein synthesis.
9) explain how protein synthesis can be controlled at the level of transcription and translation.

Course Content

Carbohydrates, Lipids, Amino acids, Nucleic acids, Gene expression and replication, RNA Synthesis, Protein synthesis, DNA Replication, Molecular cloning, Chemical synthesis polypeptides, Covalent structures of Proteins, Enzymes, Bioenergetics, Metabolism and ATP Energy, Digestion of foods, Other pathways of carbohydrate metabolism.

Weekly Detailed Course Contents

Week Subject Related Preparation
1) Functional groups and IUPAC names of organic compounds with the inclusion of all aliphatic and aromatic hydrocarbons. Problem session to overview of organic chemistry Review of topics
2) Carbohydrates; Monosaccharides, Chiral Carbon Atoms, Enantiomers, Cyclic structures of monosaccharides, Mutarotation, Cyclic structures of Galactose, Cyclic structures of Fructose, Oxidation of monosaccharides, Disaccharides, Glycosides, Maltose, Lactose, Sucrose, Fermentation, Determination of research bases of the student projects Review of topics
3) Polysaccharides, Amylose, Amylopectin, Glycogen, Cellulose, Lipids, Fatty acids, Physical properties of Fatty acids, Waxes, fats and oils, Melting points of fats and oils. Introduction to Experimental Project studies in laboratory. Review of topics
4) Amino acid structure, Amino acids with nonpolar side chains, Amino acids with uncharged polar side chains, Amino acids with charged polar side chains, Peptide Bonds, Classification and Characteristics. Biochemistry laboratory Review of topics
5) Asid - base properties, Nomenclature, Optical activity Amino acids; Operational Classification, The Fischer Convention, The Cahn-Ingold-Prelog System, Chirality, Nonstandard amino acids. Biochemistry laboratory Review of topics
6) Review Research Project submission Review of topics
7) Nucleotides and nucleic acids, The chemical structures of DNA and RNA. Biochemistry laboratory Review of topics
8) DNA as the carrier of genetic information, Transforming principle, The Hereditary Molecule of many bacteriophages, Double helical DNA, The Watson-Crick structure B-DNA, DNA is semiconservatively replicated, Denaturation and renaturation. Biochemistry laboratory. Review of topics
9) The size of DNA, Gene expression and replication, RNA Synthesis: Transcription, Protein synthesis: Translation, DNA Replication, Molecular cloning. Biochemistry laboratory Review of topics
10) Chemical synthesis polypeptides, Covalent structures of Proteins: Primary structure, Three dimensional structures of Proteins, Secondary structure. Biochemistry laboratory Review of topics
11) Fibrous proteins, Globular proteins: Tertiary structure, Quarternary structure, Enzymes, Substrate specificity, Coenzymes, regulation of enzymatic activity, Enzymes classification according to reaction type. Biochemistry laboratory Review of topics
12) Bioenergetics, Metabolism and ATP Energy, Digestion of foods . Biochemistry laboratory Review of topics
13) Important coenzymes in metabolic pathways: Redox reactions, Glycolysis: Oxidation of glucose, Reactions in Glycolysis. Biochemistry laboratory-make up Review of topics
14) Citric acid cycle (TCA cycle), Electron transport chain, Chemiosmotic model: Oxidative phosporylation. Other pathways of carbohydrate metabolism: The Glyoxylate cycle. Experimental Project submission Review of topics

Sources

Course Notes: 1) Harper's Illustrated Biochemistry, Robert K. Murray, Darryl K. Granner, Peter A. Mayes, Victor W. Rodwell. 2) Chemistry, An introduction to General, Organic & Biological Chemistry, K.C. Timberlake, 7th Ed.,1999.
References: 1) Biochemistry, D. Voet, J. G. Voet, 3rd Ed., John Wiley & Sons, USA., 2004. 2) Biochemistry: the Molecular Basis of Life, T. McKee and J. R. McKee. 3rd Ed. WCB/McGraw-Hill Press, Boston, MA 2003. 3) Principles of Biochemistry, D. L. Nelson & M. M. Cox, , 4th Ed., Worth Publishers, USA., 2005 4) Biochemistry, G. L. Zubay, 4th Ed., Mc Graw Hill, USA., 1998.

Evaluation System

Semester Requirements Number of Activities Level of Contribution
Attendance % 0
Laboratory 8 % 20
Application % 0
Field Work % 0
Special Course Internship (Work Placement) % 0
Quizzes % 0
Homework Assignments % 0
Presentation 1 % 10
Project 1 % 10
Seminar % 0
Midterms 1 % 20
Preliminary Jury % 0
Final 1 % 40
Paper Submission % 0
Jury % 0
Bütünleme % 0
Total % 100
PERCENTAGE OF SEMESTER WORK % 50
PERCENTAGE OF FINAL WORK % 50
Total % 100

ECTS / Workload Table

Activities Number of Activities Duration (Hours) Workload
Course Hours 14 3 42
Laboratory 8 2 16
Application 0 0 0
Special Course Internship (Work Placement) 0 0 0
Field Work 0 0 0
Study Hours Out of Class 15 3 45
Presentations / Seminar 1 8 8
Project 1 10 10
Homework Assignments 0 0 0
Quizzes 0 0 0
Preliminary Jury 0
Midterms 1 9 9
Paper Submission 0
Jury 0
Final 1 20 20
Total Workload 150

Contribution of Learning Outcomes to Programme Outcomes

No Effect 1 Lowest 2 Low 3 Average 4 High 5 Highest
           
Program Outcomes Level of Contribution