Methods in Protein Modeling
| Methods in Protein Modeling | |
|---|---|
| Course Description | This course provides an in-depth understanding of protein structure and function, a critical foundation for exploring biological systems, molecular networks, and drug discovery. It aims to equip students with computational techniques to analyze protein structures, understand protein interactions, design protein-targeting drugs, and optimize enzyme activities. |
| Recommended Books | 1. Protein Modelling, G. Náray-Szabó (Ed.), Springer International Publishing. 2. Molecular Modeling of Proteins, A. Kukol (Ed.), Humana Press. 3. Homology Molecular Modeling: Perspectives and Applications, R.T. Maia, R.M. de Moraes Filho, M.D.A. Campos. |
| Course Learning Outcomes | After completing this course, students will be able to: 1. Understand the hierarchical levels of protein structure and their graphical representations. 2. Predict and interpret structural information of proteins. 3. Analyze structure-function relationships in biological macromolecules. |
| Assessment System | Quizzes: 10-15% Assignments: 5-10% Midterms: 30-40% ESE: 40-50% |
| Lecture Plan | ||
|---|---|---|
| S.No. | Description | Quizzes/Assignment |
| 1 | Fundamentals of Protein Biochemistry and Protein Structure | Quiz 1 |
| 2 | Protein Structure Databases | |
| 3 | Data Visualization Methods | |
| 4 | Bioanalytical Techniques for Protein Structure Analysis | Assignment 1 |
| 5 | Methods of Protein Modeling | |
| 6 | Protein Interactions | Quiz 2 |
| 7 | Aspects of High-Performance Computing | |
| 8 | Molecular Mechanics Methods for Protein Modeling | |
| 9 | Analysis of Molecular Mechanics Trajectories | |
| 10 | Constraint-Based Protein Modeling | Assignment 2 |
| 11 | Docking Techniques and Applications | |
| 12 | Homology Modeling | Assignment 3 |
| 13 | Ab Initio Protein Structure Prediction | |
| 14 | Protein-Protein Interaction Modeling | |
| 15 | Advanced Topics in Protein Structure and Function | Quiz 3 |
