ADVANCED TOPICS ın PROTEIN : STRUC. and FUNC.

AIM

It is aimed that the student will gain knowledge on the 3D structure of proteins along with its effect on the function of the protein. Moreover, the student can design functional proteins tailored for specific purposes. Finally, he/she will learn basic knowledge on the experimental methods such as NMR/X-ray crystallography used to determine the 3D structure of proteins.

CONTENT

This course contains; Introduction to protein structure: The building blocks of protein structure,Motifs of Protein Structure,Alpha-Domain Structures,Alpha-Beta Structures,Beta Structures,Folding and Flexibility,The structure of DNA,DNA Recognition in Procaryotes by Helix-Turn-Helix Motifs,DNA recoginition by Eukaryotic Transcription Factors,Membrane Proteins,Signal Transduction,Fibrous Proteins,Recognition of Foreign Molecules by the Immune System,Prediction, Engineering and Design of Protein Structures & Determination of Protein Structures.

1. 1

   The relationship between structure, dynamics and function of proteins can be made.

   Taught by: Discussion Method, Problem Solving Method, Self Study Method, Question - Answer Technique, Brainstorming Technique, Project Based Learning Model, Reverse Brainstorming Technique, Cooperative Learning · Assessed by: Traditional Written Exam, Project Task

2. 2

   The structure of the protein can be modeled for a given function.

   Taught by: Discussion Method, Problem Solving Method, Case Study Method, Question - Answer Technique, Project Based Learning Model, Inquiry-Based Learning, Cooperative Learning · Assessed by: Traditional Written Exam, Project Task

3. 3

   The cause and effect relationship is made between problematic protein structure and dynamics and the onset of diseases.

   Taught by: Discussion Method, Problem Solving Method, Case Study Method, Question - Answer Technique, Brainstorming Technique, Project Based Learning Model, Reverse Brainstorming Technique, Problem Baded Learning Model, Cooperative Learning · Assessed by: Traditional Written Exam, Project Task

4. 4

   Tools can be used which are used for protein modeling.

   Taught by: Discussion Method, Problem Solving Method, Case Study Method, Question - Answer Technique, Project Based Learning Model, Reverse Brainstorming Technique, Problem Baded Learning Model, Cooperative Learning · Assessed by: Traditional Written Exam, Homework, Project Task

5. 5

   Novel proteins can be designed which can be used in the field of biotechnology.

   Taught by: Discussion Method, Demonstration Method, Problem Solving Method, Question - Answer Technique, Reverse Brainstorming Technique, Problem Baded Learning Model, Inquiry-Based Learning · Assessed by: Project Task

6. 6

   With the knowledge gathered from the course enzymes with improved properties can be designed.

   Taught by: Discussion Method, Problem Solving Method, Case Study Method, Question - Answer Technique, Brainstorming Technique, Project Based Learning Model, Reverse Brainstorming Technique · Assessed by: Project Task

7. 7

   The protein databank can be used effectively.

   Taught by: Demonstration Method, Self Study Method, Inquiry-Based Learning, Experiential Learning

WEEKLY PLAN

1. WEEK 1

   Introduction to protein structure: The building blocks of protein structure

2. WEEK 2

   Motifs of Protein Structure

3. WEEK 3

   Alpha-Domain Structures

4. WEEK 4

   Alpha-Beta Structures

5. WEEK 5

   Beta Structures

6. WEEK 6

   Folding and Flexibility

7. WEEK 7

   The structure of DNA

8. WEEK 8

   DNA Recognition in Procaryotes by Helix-Turn-Helix Motifs

9. WEEK 9

   DNA recoginition by Eukaryotic Transcription Factors

10. WEEK 10

    Membrane Proteins

11. WEEK 11

    Signal Transduction

12. WEEK 12

    Fibrous Proteins

13. WEEK 13

    Recognition of Foreign Molecules by the Immune System

14. WEEK 14

    Prediction, Engineering and Design of Protein Structures & Determination of Protein Structures

ASSESSMENT

• Rate of Midterm Exam to Success50%
• Rate of Final Exam to Success50%

WORKLOAD

READING

• Introduction to Protein Structure, 2 nd edition. Carl Branden & John Tooze

TEACHING STAFF

• Assoc.Prof. Özge ŞENSOYCOORDINATOR
• Assoc.Prof. Özge ŞENSOY