C5060 Methods of Chemical Research I.

Faculty of Science
Autumn 2005
Extent and Intensity
2/0/0. 2 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).
Teacher(s)
prof. RNDr. Miroslav Holík, CSc. (lecturer)
doc. RNDr. Pavel Janderka, CSc. (lecturer)
RNDr. Aleš Kroupa, CSc. (lecturer)
doc. RNDr. Pavel Kubáček, CSc. (lecturer)
doc. RNDr. Jaromír Marek, Ph.D. (lecturer)
prof. RNDr. Vítězslav Otruba, CSc. (lecturer)
doc. RNDr. Jiří Toužín, CSc. (lecturer)
prof. RNDr. Michaela Vorlíčková, DrSc. (lecturer)
prof. RNDr. Zdirad Žák, CSc. (lecturer)
Guaranteed by
prof. RNDr. Miroslav Holík, CSc.
Chemistry Section - Faculty of Science
Contact Person: prof. RNDr. Miroslav Holík, CSc.
Timetable
Tue 16:00–17:50 03021
Prerequisites
Passing out lectures Physical Chemistry I and II. Parallel hearing of the lectures from Chemical Structure.
Course Enrolment Limitations
The course is also offered to the students of the fields other than those the course is directly associated with.
fields of study / plans the course is directly associated with
there are 10 fields of study the course is directly associated with, display
Course objectives
Techniques of electron microscopy. Symmetry of molecules and crystals. X-ray diffraction and structural analysis. Raman and IR spectroscopy. NIR spectroscopy. Cyclic voltametry. Optical rotation (ORD, CD) in structural analysis. Electron paramagnetic resonance.
Syllabus
  • 1. Electron microscopy Interaction of electrons with solid phase. Electro microscope (electromagnetic lenses, electron jet, vacuum system), building of the picture, creation of contrast. Diffraction on singlecrystal and polycrystal. Sample preparation etching.

    2. Roentgen diffraction Elementary crystallography symmetry of the structure, space group symmetry, diffraction of Roentgen radiation, structural factor. Basis of structural analysis data collection, data reduction, phase problem and its solution, improvement of the structural model, structure evaluation.

    3. Crystallography of proteins Macromolecular techniques of crystallization, methods of sitting and hanging drop, inoculation. Experiments of diffraction sources of rtg. irradiation, detectors, cryo-crystallography. Methods of phase problem solution in proteins. Method of molecular transfer. Methods of metal derivatives (SIR, MIR, MIRAS), MAD and selenoproteins. Maps of electron density. Building of structural model and its refinement.

    4. Fluorescence spectroscopy Fluorescence and other luminescence methods, life time, quantum yield. Fluorescence intensity. Switch-out and selfquenching. Excitation and emission spectra. Quasiline fluorescence and fluorescence in solid phase. Spectrometer and measurement procedure.

    5. Techniques of Raman spectroscopy. Elastic and non-elastic dispersion of irradiation (Stokes and anti-Stokes lines). Transition integral and induced polarization. Electronic, resonance and surface increase. Coherent anti-Stokes Raman spectroscopy. Nonlinear effects stimulated, inverse, and hyper-effect.

    6. Methods of IR spectroscopy Origin of IR bands basic and overtones, combination lines. IR materials and solvents. Sample preparation. Application in qualitative, structural, and quantitative analysis. Study of binding characteristics (bond order, bond strength). Thermodynamics in IR spectroscopy.

    7. Near-infrared spectroscopy NIR as a method without sample preparation: low sensitivity and low resolution. Mathematic methods for qualitative and quantitative analysis. Industrial analytic transfer of signal by glass fiber. Quality control at automatic production.

    8. Circular bichroism Absorption of irradiation in monomers and polymers; absorption in nucleic acids. Advantages end disadvantages of the method. Vibration circular bichroism and linear bichroism.

    9. Cyclic voltametry Voltametry with linear pulse and cyclic voltametry. Mechanism of electrode reductions. Polarography and its use for study of redox systems and surface-active materials.

    10. EPR nature of the method Electron Paramagnetic Resonance method for study of systems with non-zero electron spin. Nature of the effect, experimental method, and characteristics of EPR signals hyperfine structure.

    11. EPR in structural analysis Use of EPR in structural and analytical chemistry.

    12. Symmetry of molecules and crystals Elements and operations of symmetry (closed and open). Mathematical expression of symmetry operations by matrix calculus.
Assessment methods (in Czech)
Výuka je organizována po dvouhodinových lekcích přednášených specialisty - fakultními i externími - v daném oboru. Závěrečná zkouška má písemnou část - test a ústní část.
Language of instruction
Czech
Further comments (probably available only in Czech)
The course can also be completed outside the examination period.
The course is taught annually.
The course is also listed under the following terms Autumn 2007 - for the purpose of the accreditation, Autumn 1999, Autumn 2010 - only for the accreditation, Autumn 2000, Autumn 2001, Autumn 2002, Autumn 2003, Autumn 2004, Autumn 2006, Autumn 2007, Autumn 2008, Autumn 2009, Autumn 2010, Autumn 2011, Autumn 2011 - acreditation, Autumn 2012, Autumn 2013, Autumn 2014, Autumn 2015, Autumn 2016, autumn 2017, Autumn 2018, Autumn 2019.
  • Enrolment Statistics (Autumn 2005, recent)
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