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The thermodynamics of DNA-hairpin formation
Sgallová, Ráchel ; Římal, Václav (advisor) ; Profant, Václav (referee)
Serum response factor (SRF) is a transcription factor which binds to a highly conserved DNA sequence called the CArG box. According to the nucleotide sequence of CArG box it could form a hairpin structure or a cruciform. In this master thesis, the structure of the CArG box in a human gene c-fos was studied by nuclear magnetic resonance. 1 H spectra at temperatures 274{356 K, two-dimensional 1 H{1 H NOESY spectra, and two-dimensional 1 H{13 C HMBC spectra for DNA sequences with lengths of 12, 14 and 16 nucleoti- des were acquired. The thermodynamic parameters of formation of the secondary structure in the samples were determined from the measured temperature depen- dencies. The hairpin formation in the samples was con rmed based on the NOESY spectra and the lack of dependency of the melting temperature on concentration. The observed difference of the secondary structure from B-DNA could serve as a possible explanation of the high a nity of SRF to CArG box. 1
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Structure and dynamics of peptides and proteins in solution: application of Raman optical activity
Profant, Václav ; Baumruk, Vladimír (advisor) ; Kapitán, Josef (referee) ; Setnička, Vladimír (referee)
The thesis inquires the specific and advantageous applications of Raman optical activity (ROA) in wide range of diverse structural and conformational studies of biomolecules and other biologically important molecules. Our investigation was focused on several interconnected topics covering the fields of methodology, basic and applied research. The combination of experimental and theoretical approaches facilitated deeper understanding of studied phenomena, and allowed for the effects of solute-solvent interactions. High-quality spectra of model molecules in the C-H stretching region, acquired as a result of successful extension of ROA measurements to the whole region of fundamental molecular vibrations, enabled verification and further development of methods for ROA spectra simulations encompassing anharmonic corrections. Utilizing spirodilactams with highly nonplanar amide groups, we have traced the specific ROA spectral manifestations of amide nonplanarity. In case of antimicrobial peptide lasiocepsine, we have successfully simulated ROA signals of S-S stretching vibrations which contrary to current belief do not seem to reflect sense of the S-S group torsion. In larger molecular systems, we have better understood the process of the formation of stable polyproline II conformation and proved that ROA may...
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The Fate of Pankrác Prisoners in After-war Period- Pankrác Prison, May 1945-1946
Profant, Vladimír ; Štemberk, Jan (advisor) ; Šalanda, Bohuslav (referee)
The main topic of this thesis is the fate of people being held in the Pankrác prison in the period of approximately one year after the end of World War II. The base of the thesis are collected testimonies, information about the circumstances of the events at that time from both the present and available contemporary literature and periodicals, their analysis and comparisons as well as adding other relating data from archives and other sources. The introduction and the methodological part is followed by a historical discourse observing the events of the end of World War II in the European context, history of the Pankrác prison since the time of its establishment in 1889, and the Czech-German conflict in the period before the Munich Agreement had been signed and the period of the Protectorate of Bohemia and Moravia, until the transfer of the control over the prison by the Czech administration in May 1945. The individual topics introducing the conditions that prevailed in the Pankrác prison at that time are elaborated in the part devoted to the postwar period. The chapters devoted to the characteristics of prisoners and introduction of the collected testimonies introduce another part describing the circumstances of the detention of persons, their arrival to the Pankrác prison, conditions and...
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Emergencies related with using narcotic and psychotropic substances in South Bohemian Region
PROFANT, Václav
I chose the topic "Emergencies related with using narcotic and psychotropic substances in South Bohemian Region" for my bachelor thesis. These events are extraordinarily dangerous and overall abuse drugs threatens the healthy development of the whole society. The main objective of empirical quantitative research was descriptively chart development trend of emergencies related with using narcotic and psychotropic substances in South Bohemian Region. Availability of literature to the topic was considerably limited. In the theoretical part I focused on theoretical background, basic concepts regarding with emergencies related with using narcotic and psychotropic substances. Further I wrote overview about the most famous abused drugs and their classification. At the end of this part I mention laws and regulations regarding drugs. The practical part consists of empirical quantitative research whose the main objective was descriptively chart development trend of emergencies related with using narcotic and psychotropic substances in South Bohemian Region. For the method I chose content analysis of the text which I made in a quantitative way. By determining statistical population of texts I analyzed official documents - public available official statistical data of criminality of Police of the Czech Republic and data provided of Police Presidium of the Czech Republic, Department of Computer Science and Information Technology Operation. The research survey in the term of 5 years - 2010 - 2015 I answered on a research problem, defined by using research questions. I concluded that some emergencies are trully committed under the influence of narcotics and psychotropic substances. The research demonstrated upward developmental trend of emergencies committed under the influence of narcotics and psychotropic substances. Finally I summarize the results of bachelor thesis and I recommend its use in practice.
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Vliv syntetických progestinů na vývoj gonád kapra obecného
PROFANT, Vít
This paper was focused on effect of synthetic progestins on gonadal development in fish. A 160-day chronic test on common carp (Cyprinus carpio), was run underlaboratory conditions. The fish was divided into five experimental groups. The first control group included clear diluted water without any occurrence of progestins. The second control group was kept in diluted water with dissolving agent DMSO (dimethylsulfoxide). The third group of fish was exposed to gestogene at a concentration level of 2 ng.l-1 and the fourth group was exposed to drospirenone at a concentration level of 2 ng.l-1. The last group (Mix) was exposed to gestogene and drospirenone simultaneously, where both substances corresponded to the concentration of 2 ng.l-1. The experimental groups were dosed with progestins dissolved in DMSO, since they have lipophilic nature. The determination of the influence of synthetic progestins on the gonadal development was based on histological examination of the exposed fish samples in toto. There was any signifficant difference in fish sex ratio and in percentage of intersex occurrence between the groups that wwere exposed to individual synthetic progestins and the control groups. However, the exposure of the mixture of drospirenone and gestogene (Mix) showed a significant difference. Primarily, a high percentage of intersex was detected with the number reaching 36.6 %. The occurrence of intersex suggested a twist in sex of exposed fish through ontogenesis.
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Cluster studies in molecular beams
Profant, Václav ; Kužel, Petr (referee) ; Dian, Juraj (advisor)
In the present work we study properties of clusters of small heteroatomic molecules with biological relevance by several experimental methods based on molecular beams. In the rst experiment structure and dynamics of size-selected charged pyrrole clusters have been studied by means of molecular beam scattering experiment. Small neutral P yn clusters were produced in Py/He expansions and larger mixed P ynArm clusters in Py/Ar expansions, and the scattering experiment with a secondary beam of He atoms was used to select the neutral clusters of dierent sizes. The complete size-selected fragmentation patterns for the neutral dimer to tetramer after an electron impact ionization at 70 eV from the measurements of the angular and velocity distributions at dierent fragment masses. In second experiment photolysis of size selected pyrrole, imidazole and pyrazole clusters has been investigated. Comparison with the photolysis of an isolated molecules and between studied systems has been made. Clusters were photolyzed at 243 and 193 nm and the kinetic energy distributions of the H-photofragments have been measured and analyzed. Finally the mass spectra of the fragments after multiphoton ionization have been measured. The signicant inuence of the cluster environment to the photolytic behavior was observed and discussed.
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Cluster studies in molecular beams
Profant, Václav ; Dian, Juraj (advisor)
In the present work we study properties of clusters of small heteroatomic molecules with biological relevance by several experimental methods based on molecular beams. In the first experiment structure and dynamics of size-selected charged pyrrole clusters have been studied by means of molecular beam scattering experiment. Small neutral Pyn clusters were produced in Py/He expansions and larger mixed PynArm clusters in Py/Ar expansions, and the scattering experiment with a secondary beam of He atoms was used to select the neutral clusters of dierent sizes. The complete size-selected fragmentation patterns for the neutral dimer to tetramer after an electron impact ionization at 70 eV from the measurements of the angular and velocity distributions at dierent fragment masses. In second experiment photolysis of size selected pyrrole, imidazole and pyrazole clusters has been investigated. Comparison with the photolysis of an isolated molecules and between studied systems has been made. Clusters were photolyzed at 243 and 193 nm and the kinetic energy distributions of the H-photofragments have been measured and analyzed. Finally the mass spectra of the fragments after multiphoton ionization have been measured. The significant inuence of the cluster environment to the photolytic behavior was observed and discussed.
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Solvent Influence on Photochemistry of Small Biomolecules in Clusters
Profant, V. ; Dian, J. ; Fárník, Michal ; Poterya, Viktoriya
We present a photolysis study of pyrrole, imidazole and pyrazole clusters in comparison to the photolysis of the isolated molecules. Size distributions of different mean cluster sizes have been prepared and characterized in supersonic expansions. The clusters were photolyzed at 243 and 193 nm and the kinetic energy distributions (KEDs) of the H-fragments were measured. The KEDs of all systems exhibit a bimodal character with slow and fast H-fragment peaks similar to the spectra of the corresponding single molecules. However, with the increasing clusters size the slow component gains on intensity in comparison to the fast component. A similar effect is observed with increasing the excitation energy from 243 to 193 nm.
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