Nenad Ban: Catalogue data in Spring Semester 2015 |
| Name | Prof. Dr. Nenad Ban |
| Field | Molekulare Strukturbiologie |
| Address | Inst. f. Molekularbiol.u.Biophysik ETH Zürich, HPK H 3 Otto-Stern-Weg 5 8093 Zürich SWITZERLAND |
| Telephone | +41 44 633 27 85 |
| Fax | +41 44 633 12 46 |
| ban@mol.biol.ethz.ch | |
| Department | Biology |
| Relationship | Full Professor |
| Number | Title | ECTS | Hours | Lecturers | |
|---|---|---|---|---|---|
| 551-0142-00L | Structure Determination of Biological Macromolecules by X-ray Crystallography and NMR | 6 credits | 3G | F. Allain, N. Ban, K. Locher, G. Wider, K. Wüthrich, further lecturers | |
| Abstract | The course provides an overview of experimental methods for the determination of structures of macromolecules at atomic resolution. | ||||
| Learning objective | Insight into the methodology, areas of application and limitations of two principal methods for the structure determination of biological macromolecules. | ||||
| Content | Part I: Methods for the determination of the structure of proteins and macromolecular complexes using X-ray diffraction in single crystals. Part II: Methods for the determination of protein structures in solution using nuclear magnetic resonance (NMR) spectroscopy. Experimental approaches to the characterization of intramolecular dynamics of proteins. | ||||
| Literature | 1) Wüthrich, K. NMR of Proteins and Nucleic Acids, Wiley-Interscience. 2) Blow, D. Outline of Crystallography for Biologists. Oxford University Press. | ||||
| 551-0307-01L | Biomolecular Structure and Mechanism II: Large Cellular Machines | 3 credits | 2V | N. Ban, F. Allain, T. Ishikawa, M. Pilhofer | |
| Abstract | This Concept Course will cover advanced topics in Molecular Biology with particular emphasis on the structure and function of large cellular assemblies. | ||||
| Learning objective | This concept course will further develop general topics introduced in basic biochemistry classes (for example: Fundamentals of Biologie II: Biochemistry and Molecular Biology - 551-1323-00L) with emphasis on the architecture and the function of large cellular machines involved in DNA replication, transcription, translation, nucleic acid packaging in viruses, RNA processing, function of large multienzymes, motor proteins and injection assemblies. Specifically the following topics will be covered: 1) Translation, advanced topics, 2) Co-translational protein processing, folding and targeting to the membranes, 3) Virus structure principles, 4) Multienzyme function and architecture, 5) DNA replication, Chromatin structure, remodeling, 6) Injection machines, structure and mechanism, 7) ATP-driven motor proteins, 8) Transcription, prokaryotic and eukaryotic, transcription factors -DNA specific vs non specific recognition, 9) Principles of RNA structures 10) Ribozymes and self-splicing 11) RNA processing machineries Capping, Splicing, 3'end processing and polyadelylation 12) Splicing regulation | ||||
| Content | Advanced class covering the state of the research in structural molecular biology of basic cellular processes with emphasis on the function of large cellular assemblies. | ||||
| Lecture notes | Updated handouts will be provided during the class. | ||||
| Literature | The lecture will be based on the latest literature. Additional suggested literature: Branden, C., and J. Tooze, Introduction to Protein Structure, 2nd ed. (1995). Garland, New York. | ||||
| 551-0436-00L | Structural Characterization of Macromolecular Complexes Involved in Protein Synthesis  Number of participants limited to 10 | 6 credits | 7G | N. Ban, C. H. S. Aylett, D. Böhringer, M. A. Leibundgut | |
| Abstract | Structural Characterization of Macromolecular Complexes: Cellular Assemblies and Machines | ||||
| Learning objective | The goal of the course is to acquire the most important techniques and methods for the purification and structural characterization of macromolecular complexes by transmission electron microscopy and X-ray crystallography. The emphasis of the course is on the special practical requirements for the application of these techniques on macromolecular structures in the Megadalton range. | ||||
| Content | Chromatography and ultracentrifugation will be used for the purification of macromolecular complexes. Purified assemblies will be functionally investigated. The samples will be further characterized by transmission electron microscopy incl. sample preparation, microscopy and data evaluation. The purified macromolecular complexes will be subjected to crystallization and the obtained crystals will be used for crystallographic data collection and analysis. The participants will be working on a closed project related to current research of our laboratory and throughout the course the practical work will be accompanied by brief theoretical introductions. The course is aiming to strengthen the skills required to independently develop research strategies and for the structural characterization of cellular macromolecular assemblies. | ||||
| Lecture notes | A script is distributed in the course (the course is held in English). | ||||
| Literature | A. McPherson, Crystallization of biological macromolecules, CSHL Press, 1999 ( chapters 3, 5 ) A. Fersht, Structure and mechanism in protein science, Freeman, 1999 ( chapters 1, 6) M. van Heel et al., Single-particle electron cryo microscopy: towards atomic resolution, Quart. Rev. Biophys. (33), 307-369 (2000) Further reading and citations are listed in the course script. | ||||
| Prerequisites / Notice | Required level: 551-0307-00 V Macromolecular Structure and Biophysics 1 551-0307-01 V Macromolecular Structure and Biophysics 2 (or equivalent courses on structure and function of biological macromolecules) | ||||
| 551-1323-AAL | Fundamentals of Biology II: Biochemistry and Molecular Biology  Enrolment only for MSc students who need this course as additional requirement. | 4 credits | 11R | R. Glockshuber, N. Ban, K. Locher, E. Weber-Ban | |
| Abstract | Amino acids; structure of proteins; folding; dynamics and evolution; protein purification; sugars and polysaccharides; lipids and membranes. Enzymatic catalysis. Metabolism; Gene expression and propagation of genetic information; structure of DNA; transcription; protein biosynthesis; DNA replication. Gene technology; production of recombinant proteins. | ||||
| Learning objective | Knowledge on the structural construction of biological macromolecules, principles of enyme catalysed reactions, basics of molecular genetics and protein biochemistry, basic mechanisms of metabolism and of DNA replication and gene expression. | ||||
| Content | Part 1: Biomolecules; amino acids; covalent assembly of proteins; three dimensional structure of proteins; folding; dynamics and evolution of proteins; methods of protein purification; sugars and polysaccharides; lipids and membranes. Part 2: Enzymatic catalysis: classes of enzymes; kinetics of non catalysed versus catalysed reactions. Examples for the mechanisms of enzyme catalysis. Part 3: Metabolism: Principles of metabolic pathways in living cells; glycolysis; glycogen metabolism; mechanisms of membrane transport; citric acid cycle; electron transport and oxidative phosphorylation. Part 4: Gene expression and propagation of genetic information; structure of DNA; DNA modifying enzymes and manupulation of nucleic acids; transcription; protein biosynthesis; DNA replication. Part 5: Gene technology; production of recombinant proteins | ||||
| Literature | "Biochemistry" (Voet & Voet; Wiley & Sons, 2nd edition). | ||||
| 551-1620-00L | Molecular Biology, Biophysics | 1 credit | 1K | R. Glockshuber, F. Allain, N. Ban, K. Locher, E. Weber-Ban, G. Wider, K. Wüthrich | |
| Abstract | The course consists of a series of research seminars on Structural Biology and Biophysics, given by both scientists of the National Center of Competence in Research (NCCR) in Structural Biology and external speakers. | ||||
| Learning objective | The goal of this course is to provide doctoral and postdoctoral students with a broad overview on the most recent developments in biochemistry, structural biology and biophysics. | ||||
| Prerequisites / Notice | Information on the individual seminars is provided on the following websites: http://www.structuralbiology.unizh.ch/events005.asp http://www.biol.ethz.ch/dbiol-cal/index | ||||