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Obnovit | RAW

Structural Biology

Lecture Excercise/laboratory
2019, Summer Semester
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Credits 3
Hours per week 0 / 3 / 0
Examination MC
Study Language Czech
Level []
Guarantor prof. Ing. Richard Hrabal, CSc.
Supplemental electronic materials available at UCT Prague's e-learning

Summary

The main goal of the course is to teach students the fundaments of modern instrumental techniques like mass spectrometry, nuclear magnetic resonance spectroscopy, X-ray crystallography, optical and electron microscopy, surface plasmon resonance and their applications in biochemistry. microbiology and other biological sciences. Introductory lectures cover methods of visualisation of biomolecules, computational methods and work with databases.

Syllabus

1. Structural databases, basic operations with biomolecular structures, molecular electrostatics
2. Prediction of protein structures, docking, virtual screening
3. Molecular mechanics, QM/MM, molecular dynamics, protein folding
4. Bases of nuclear magnetic resonance spectroscopy, (NMR), chemical shift, coupling constant, instrumental equipment
5. Technology of structure determination of proteins and their complexes, study of dynamical behavior. Practical examples of using NMR
6. Introduction to X-ray crystallography, crystal preparation
7. Diffraction theory, collection of diffraction data, phase problem, structure determination. Model construction, structure validation
8. Principles and basic techniques of electron microscopy, TEM, SEM and their using in biological sciences
9. Atomic force microscopy AFM, scanning probe microscopy SPM, scanning tunneling microscopy STM
10. Introduction to protein mass spectrometry, ionizations techniques, detectors, fragmentation techniques
11. Applications of MS in biological sciences (molecular mass determination, protein identification, sequential analysis…. Practical examples of using MS)
12. Optical microscopy
13. Superresolution microscopy
14. Surface plasmon resonance

Literature

R: http://clab.vscht.cz/nmr/vyuka/struktbio
A: Karlík M., Úvod do transmisní elektronové mikroskopie, ČVUT Praha, 2011, 978-80-01-04729-3
A: H. Günther: NMR Spectrosocopy John Wileay and Sons, 2.vydání, 2001
A: Orsburn B.C., Handbook of basic mass spectrometry for biologists and medical technologists: What you really need to know to get started, Bench to Bedside Press, New York, 2010, 0615434983.
A: de Hoffmann E., Stroobant V., Mass spectrometry: Principles and Applications, Chichester, 2007, 978-0-470-03310-4.
A: A. Fiser, A. Sali. Modeller: generation and refinement of homology-based protein structure models. Methods Enzymol 374, 461-491, 2003.

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