Mr.Refai
Computational Biochemistry (Bioc 392), Practical Session Course Content
Student will take some hints in using Office programs; Word, Powerpoint, Excel and Internet Explorer. Then, Topics will be listed and presented to student to choose and present a seminar individually.
On the first week we will talk about the content of the course and the programs that will be discussed.
The following table will detail the topics will be discussed week by week.
Time (week) Topic
1 Registration
2 Installation and Introduction of the Following Programs:
• ChemDraw
• BioDraw
• MiniTab, Statistica or Graph pad Prism
3 1. ChemDraw: the users, option, menu, possibilities of the program 2. How to draw and form Amino Acids, Peptide bond, simple sugar,
polypeptides and proteins
4 Task1: Draw the following peptides and label the peptide bond with different color:
• Tryptophyl – prolyl – valyl – cystelyl – glycelyl – alanilyl – histidyl – serilyle – cysteine
• Glyceyl – arginyl – tyrosiyl – tryptophayl – leuciyl – isoleuciyl – valine Task2: Draw the following non-standard amino acids:
• Dopamine
• GABA
• Histamine
• Cyanoalanine
• Serotonine
5 Task3: Calculate the molecular weight of the following:
• Cholesterol, Squalene, Antinomycin, Stearic acid, Glutathione, Task4: Draw with illustration the Formation of cystine
Task5: Draw with illustration the high energy compound and mark the high energy bond; ATP, NADH, FADH and NADP
6 Task6: Draw the following oligonucleotides and label the phosphodiester bond with different color:
• A-G-C-A-A-G
• T-T-C-C-A-C-G-A
7 Examination on ChemDraw. Student will Draw and illustrate more that one structure and they will be able to manipulate with the structures they already studied on previous courses
8 BioDraw: the users, option, menu, possibilities of the program, is it important to get
Mr.Refai
know this program?
Draw with illustration the glycolysis pathway and mark out the cofactors, structures and the enzymes.
Take home exam. Draw the following pathways:
• Overview of Catabolism (page 551)
• The Malate – Aspartate Shuttle (page 801)
• The Heme Degradation pathway (page 1022) 9 1. Draw the following pathways:
• Glycolysis
• Curi cycle
• TCA cycle
• Urea cycle 2. Formation of cAMP
• Draw the followings:
• Phagocytosis
• Life Cycle of a Virus inside a Cell
• Structure of DNA and RNA 10 BioDraw Exam
11 Biostatistics : installation and introduction What is Student – T test? Who should use it?
Exercise 12 Final Seminar*
