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Measuring of conformational properties of nucleic acids
Hrazdilová, Ivana ; Renčiuk,, Daniel (referee) ; Maděránková, Denisa (advisor)
This thesis gives a brief characteristic of the most important conformations of nucleic acids. It describes alternative conformations that are different from canonical B-DNA helix, such as A-DNA, Z-DNA, triplex structures, or guanine and cytozin quadruplex structures. In the next part it presents most common methods used for determing secondary structure of nucleic acids, which are nuclear magnetic resonance (NMR), measurement of circular dichroism (CD), X-ray diffraction, computational methods, measurements of ultraviolet absorbance and its utilization for analysis of thermal melting curves. In MATLAB was created algorithm with graphical user interface, which analyze melting curves and graphically computes thermodynamic parameters, which are melting temperature and transition enthalpy, which defines stability of examined sample.
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Conformation and molecular organization of humic acids in aqueous solutions
Věžníková, Kateřina ; Pospíšilová, Ľubica (referee) ; Klučáková, Martina (advisor)
This diploma thesis deals with the conformation and molecular organization of humic acids in aqueous solutions. Humic substances have heterogeneous and polydisperse nature, therefore their secondary chemical structure has not yet been defined properly, neither has their conformational arrangement. The conformation of humic substances in the solutions is mainly stabilized by weak disperse forces, such as Van der Waals, -, CH- interactions and hydrogen bonds. Humic substances in the solutions tend to form aggregates that are held together mostly by the intermolecular hydrophobic interactions. Concentration series of humic acids were prepared in three different mediums of constant ionic strength: NaOH and NaCl (prepared either by neutralization NaOH by HCl or direct dilution by solution of NaCl). Several analytical methods have been used to determine conformation and molecular organization of humic acids: potentiometric determination of pH, direct conductometry, ultraviolet and visible spectroscopy, density measurement, dynamic light scattering, laser Doppler velocimetry and high resolution ultrasound spectrometry. It was confirmed that the conformation and molecular organization of humic acids in aqueous solutions depend not only on pH of medium, but they also depend on chemical nature and concentration with the same pH. Results showed that hydrodynamic diameter of particles is significantly increasing in NaCl medium prepared by neutralization NaOH by HCl, particularly at low concentrations, which corresponds to higher values of zeta potential obtained. Concentration dependencies of ultrasonic velocity and compressibility also indicate the changes in conformation and molecular organization corresponding with results from other methods used.
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Molecular organization of humic acids in solutions
Chytilová, Aneta ; Enev, Vojtěch (referee) ; Klučáková, Martina (advisor)
The diverse structure and content of the highly varied functional groups of humic acids determine these substances as a worthwhile study material for a number of scientific institutions. Above all, the structure causes a wide range of their interesting properties, especially spectral, colloidal, electrochemical, ion-exchange and adsorption properties. Humic acids have variety of utilization in the industry while they have been the subject of a range of further research and development. The character of these complex heterogeneous polydisperse substances is mainly cyclic and aromatic, which according to some studies results in their brown color. Generally, there are multiple theories assuming their potential secondary structure. The aim of this study is the analysis of structure and conformation of humic acids in aqueous solutions. For the purposes mentioned above a concentration series of humic acids have been prepared in four different mediums: 0,1 M NaOH, humic acids in water with pH modified to 12 (basic medium), 0,1 M NaOH + 0,1 M HCl, 0,1 M NaCl (neutral medium). In order to study conformations several analytic methods have been used: ultraviolet and visible spectroscopy, dynamic light scattering, electrophoretic light scattering, potentiometric determination of pH and direct conductimetry. Throughout the experimentation the emphasis was mainly on the purity of humic acids extracted from lignite.
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