TÜRKÇE
ENGLISH
Information
| Unit | INSTITUTE OF NATURAL AND APPLIED SCIENCES |
| BIOLOGY (MASTER) (WITH THESIS) | |
| Code | BY782 |
| Name | Post-translational mechanisms |
| Term | 2026-2027 Academic Year |
| Term | Fall |
| Duration (T+A) | 3-0 (T-A) (17 Week) |
| ECTS | 6 ECTS |
| National Credit | 3 National Credit |
| Teaching Language | Türkçe |
| Level | Belirsiz |
| Type | Normal |
| Mode of study | Yüz Yüze Öğretim |
| Catalog Information Coordinator | Dr. Öğr. Üyesi ÖZGECAN KAYALAR |
| Course Instructor |
The current term course schedule has not been prepared yet.
|
Course Goal / Objective
Investigation of post-translational mechanisms involved in controlling protein function and fate in organisms at different organizational levels
Course Content
Introduction to post-translational modifications, definitions, and basic functions; types of post-translational modifications and their roles in cell signaling; phosphorylation types and their effects on protein functions; ADP-ribosylation and its effects on protein functions; methylation types and their effects on protein functions; acetylation (Nα- and Nε-acetylation) types and their effects on protein functions; glycosylation and the role of sugars in protein functions; lipidation and the role of lipids in protein functions; S-nitrosylation, S-sulfidration, S-glutathionylation, and their mechanisms; adenylation, uridylation, and methionine oxidation; ubiquitination and its mechanisms; ubiquitin-like modifications and their mechanisms; specific polypeptide cleavage mechanisms including targeted proteolysis (proteasome) and the removal of signal peptides
Course Precondition
None
Resources
1. Post-Translational Modification of Proteins, Ed: Christoph Kannicht, Methods in Molecular Biology, Springer, 2019. https://doi.org/10.1007/978-1-4939-9055-9. 2. Computational Methods for Predicting Post-Translational Modification Sites, Methods in Molecular Biology, Ed: Dukka B. KC, ISBN: 9781071623190, Springer 2023. 3. Ying, S. (Ed.). (2021). Post-Translational Modifications in Cellular Functions and Diseases. IntechOpen. https://doi.org/10.5772/intechopen.91081.
Notes
Current publications, websites, current books, current literature on the subject
Course Learning Outcomes
| Order | Course Learning Outcomes |
|---|---|
| LO01 | Explain the molecular basis of post-translational modifications, their effects on protein diversity, and their basic biological functions |
| LO02 | It analyzes the regulatory roles of different types of PTMs in intracellular signaling pathways and how they control protein-protein interactions. |
| LO03 | Understands in which amino acid side chains and by which enzymatic processes basic modifications such as phosphorylation, methylation and acetylation (Nα and Nε) occur. |
| LO04 | Interprets the critical effects of modifications such as glycolization and lipidation on protein folding, membrane localization, and stabilization |
| LO05 | Evaluates the role of redox-based changes such as S-nitrosylation and adenylation and oxidation processes in cellular stress and metabolism. |
| LO06 | Describe the enzyme cascades (E1-E2-E3) of ubiquitin and ubiquitin-like modifications and their functions in protein degradation/signal transduction processes. |
| LO07 | It describes the mechanisms of targeted proteolysis (proteasome) and the specific cleavage processes that activate the protein at the molecular level, such as the removal of signaling peptides. |
| LO08 | Analyzes the role of disorders in PTM processes (mutations, misfolding, or enzyme activity changes) in the pathogenesis of cancer, chronic diseases, neurodegenerative diseases, and metabolic disorders at the molecular level; discusses the potential of these modifications as therapeutic targets in a scientific framework using current literature data. |
Relation with Program Learning Outcome
| Order | Type | Program Learning Outcomes | Level |
|---|---|---|---|
| PLO01 | Bilgi - Kuramsal, Olgusal | Based on the undergraduate level qualifications, develops and deepens the knowledge in the same or different field at the level of expertise and analyzes and interprets them using statistical methods. | |
| PLO02 | Bilgi - Kuramsal, Olgusal | Identifies the interdisciplinary interaction that the field is related to. | 2 |
| PLO03 | Bilgi - Kuramsal, Olgusal | Interprets the knowledge gained in the field by integrating the information from different disciplines and creates new information. | 1 |
| PLO04 | Bilgi - Kuramsal, Olgusal | Carries out a study that requires expertise related to the field independently. | 2 |
| PLO05 | Beceriler - Bilişsel, Uygulamalı | Evaluates the knowledge and skills acquired at the level of expertise in the field with a critical approach and directs its learning. | 1 |
| PLO06 | Yetkinlikler - Bağımsız Çalışabilme ve Sorumluluk Alabilme Yetkinliği | Supports the current developments in the field and their studies with quantitative and qualitative data and transmits them both in the field and outside the field systematically in written, oral and visual form. | 2 |
| PLO07 | Yetkinlikler - Öğrenme Yetkinliği | It supervises the social, scientific, cultural and ethical values in the collection, interpretation, application and announcement stages of the data related to the field and teaches these values. | |
| PLO08 | Bilgi - Kuramsal, Olgusal | The information they absorbed in the field; use problem solving and / or practical skills in interdisciplinary studies. | 3 |
| PLO09 | Bilgi - Kuramsal, Olgusal | It contributes to the solution of social, scientific, cultural and ethical problems encountered in the field and supports the development of these values. | |
| PLO10 | Yetkinlikler - Bağımsız Çalışabilme ve Sorumluluk Alabilme Yetkinliği | Develops new ideas and methods related to the field by using high level mental processes such as creative and critical thinking, problem solving and decision making. | 2 |
Week Plan
| Week | Topic | Preparation | Methods |
|---|---|---|---|
| 1 | Introduction to Post-translational Modifications, definitions, basic functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma |
| 2 | Types of post-translational modifications and their role in cell signaling | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma |
| 3 | Phosphorylation types and their effects on protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma |
| 4 | ADP-ribosylation and its effects on protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Tartışma, Soru-Cevap |
| 5 | Acetylation (Nα- and Nε-acetylation) types and their effects on protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Tartışma, Soru-Cevap |
| 6 | The role of sugars in glycolization and protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Tartışma, Soru-Cevap |
| 7 | Methylation types and their effects on protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma |
| 8 | Mid-Term Exam | General review | Ölçme Yöntemleri: Ödev, Sözlü Sınav, Yazılı Sınav, Performans Değerlendirmesi |
| 9 | The role of lipids in lipidation and protein functions | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Beyin Fırtınası, Grup Çalışması |
| 10 | S-Nitrosylation, S-Sulfidration, S-Glutathionylation and its mechanisms | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Grup Çalışması, Beyin Fırtınası |
| 11 | Adenylation, Uridylation, and Methionine Oxidation | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Grup Çalışması, Beyin Fırtınası |
| 12 | Ubiquitination and its mechanisms | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Grup Çalışması, Beyin Fırtınası |
| 13 | Ubiquitin-like modifications and their mechanisms | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Tartışma, Soru-Cevap, Grup Çalışması, Beyin Fırtınası |
| 14 | Unique modifications of translational elongation factors (including ethanolamine, phosphoglycerol, diphtamide, and hyppusin binding | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Grup Çalışması, Beyin Fırtınası |
| 15 | Mechanisms of Targeted Proteolysis (Proteasome) and Specific Polypeptide Cleavage (Removal of Signal Peptides) | Reading current lecture notes and related articles, internet research | Öğretim Yöntemleri: Anlatım, Soru-Cevap, Tartışma, Grup Çalışması, Beyin Fırtınası |
| 16 | Term Exams | General review | Ölçme Yöntemleri: Yazılı Sınav, Ödev, Performans Değerlendirmesi |
| 17 | Term Exams | Written exam, homework, performance evaluation | Ölçme Yöntemleri: Yazılı Sınav, Ödev, Performans Değerlendirmesi |
Student Workload - ECTS
| Works | Number | Time (Hour) | Workload (Hour) |
|---|---|---|---|
| Course Related Works | |||
| Class Time (Exam weeks are excluded) | 14 | 3 | 42 |
| Out of Class Study (Preliminary Work, Practice) | 14 | 5 | 70 |
| Assesment Related Works | |||
| Homeworks, Projects, Others | 0 | 0 | 0 |
| Mid-term Exams (Written, Oral, etc.) | 1 | 15 | 15 |
| Final Exam | 1 | 30 | 30 |
| Total Workload (Hour) | 157 | ||
| Total Workload / 25 (h) | 6,28 | ||
| ECTS | 6 ECTS | ||