The reaction mechanism for the selective catalytic reduction (SCR) of nitric oxide by ammonia on (010) V2O5 surface represented by a V2O9H8 cluster was simulated by density functional theory (DFT) calculations. The computations indicated that SCR reaction consisted of three main parts. In the first part ammonia activation on Br&oslash / nsted acidic V-OH site as NH4+ species by a nonactivated process takes place. The second part includes the interaction of NO with pre-adsorbed NH4 + species to eventually form nitrosamide (NH2NO). The rate limiting step for this part as well as for the total SCR reaction is identified as NH3NHO formation reaction. The last part consists of the decomposition of NH2NO on the cluster which takes advantage of a hydrogen transfer mechanism between the active V=O and V-OH groups. Water and ammonia adsorption and dissociation are investigated on (101) and (001) anatase surfaces both represented by totally fixed and partially relaxed Ti2O9H10 clusters. Adsorption of H2O and NH3 by H-bonding on previously H2O and NH3 dissociated systems are also considered. By use of a (001) relaxed Ti2O9H10 cluster, the role of anatase support on SCR reaction is investigated. Since NH2NO formation on Ti2O9H10 cluster requires lower activation barriers than on V2O5 surface, it is proposed that the role of titanium dioxide on SCR reaction could be forming NH2NO. The role of vanadium oxide is crucial in terms of dissociating this product into H2O and N2. Finally, NH3 adsorption is studied on a V2TiO14H14 cluster which represents a model for vanadia/titania surface.

Chlorine solid-state nuclear magnetic resonance (SSNMR) is an ideal site specific probe of chloride-containing solids as SSNMR tensor properties are sensitive to the local chlorine environment. In this thesis, the development and use of chlorine SSNMR as a method to characterize a wide variety of chemical environments was explored. Ultrahigh field, and multi-field studies were essential to overcome the difficulties associated with the collection of chlorine SSNMR spectra. Benchmark chemical shift (CS) and electric field gradient (EFG) tensor data were collected for organic chloride systems, including several amino acid hydrochlorides. These experiments demonstrated the sensitivity of chlorine SSNMR to slight changes in chemical environment. Quantum chemical calculations were used to complement experimental data, with the gauge-including projector augmented wave DFT (GIPAW-DFT) method shown to yield better agreement than B3LYP or RHF methods. The GIPAW-DFT method was found to slightly, but systematically, overestimate the chlorine quadrupolar coupling constant and the CS tensor span. Other organic chlorides examined by chlorine SSMR included a known ion receptor, meso-octamethylcalix[4]pyrrole. This compound was found to have a very small quadrupole interaction (QI), but significant chemical shift anisotropy (CSA). GIPAW-DFT calculations were also utilized and, in combination with the experimental results, used to identify the solvate structure of the material analyzed by NMR. Chlorine SSNMR was further used to study different solvate structures and polymorphism. The technique was an effective means to distinguish different room temperature polymorphs of benzidine hydrochloride, despite the similarities of the chloride environments. In the case of magnesium chloride, chlorine SSNMR was sensitive to the level of hydration and through the use of GIPAW-DFT calculations, the identity of an unknown hydrate was determined. An analysis of several group thirteen chlorides demonstrated that chlorine SSNMR was also capable of characterizing the chlorine environment in cases where the QI is large, despite the resulting broad line widths. In these systems GIPAW-DFT calculations also yielded excellent agreement with experimental values. Throughout this research, chlorine SSNMR has been shown to be a useful and effective means to study both organic and inorganic chlorides, with computational methods proving to be an important complement to experimental data.

Title: Theory and application of optical spectroscopic methods for structural molecular studies Author: RNDr. Jana Hudecová Department / Institute: Institute of Organic Chemistry and Biochemistry Supervisor of the doctoral thesis: Prof. RNDr. Petr Bouř, DSc. Abstract: In the thesis, methods of the chiroptical spectroscopy (Raman optical activity, electronic and vibrational circular dichroism, circularly polarized luminescence) were utilized to obtain information on structure of chiral molecules. In four main projects, we focused on improving accuracy of quantum-chemical computations used for interpretation of experimental spectra by including anharmonic effects, solvent, molecular flexibility and dynamics. In the first project, the normal mode geometry optimization method was investigated and a suitable frequency limit providing realistic vibrational band broadening was found. Then the ability of harmonic and anharmonic computational approaches to describe the C-H stretching vibrations was explored for three terpene molecules and four spectroscopic methods. In the third project, we estimated the role of dispersion forces and different organic solvents for conformer equilibria and dynamics of cyclic dipeptides containing tryptophan. In the last project, circularly polarized luminiscence spectra, which were...

Title: Magnetic circular dichroism and aromatic compounds Author: Petr Štěpánek Department/Institute: Institute of Organic Chemistry and Biochemistry AS CR, v.v.i. Supervisor: prof. RNDr. Petr Bouř, DSc., Institute of Organic Chemistry and Biochemistry AS CR, v.v.i. Abstract: The thesis presents a series of studies concerning magnetic circular dichroism (MCD), a spectroscopic method, which experienced an intense theo- retical development in the recent years. New computational codes opened possi- bilities to calculate MCD spectra of larger and more varied molecules than was possible in the past. In the presented studies, we took the advantage of the new computational codes to broaden the possible span of applications of the MCD technique. As an example, we present MCD as a method useful for obtaining information about the structure of fullerenes. We also studied the influence of the molecular conformation and the explicit and implicit solvent models on the MCD spectra of aromatic amino acids using the newly implemented alterna- tive computational protocol based on sum-over-states calculations. We have also theoretically predicted spectra of the nuclear spin circular dichroism (NSCD), a potential new high-resolution spectroscopy. Keywords: magnetic circular dichroism, quantum-chemical calculations, density...

Porphyrins are an important class of biomolecules, which are heavily studied, both ex- perimentally and computationally. But, despite the intensive efforts, for many questions we still aren't able to consistently find an agreement between theory and experiment. One of the still unresolved issues is the character of the ground state of the Fe(II)-porphyrin molecule. We used a model of the Fe(II)-porphyrin molecule to study the effects of geometrical changes on the spin states. By carrying out extensive DMRG-CASSCF cal- culations topped with TCCSD correlation treatment we are able to link the effects of these geometrical changes to the experimental results, and predict a quintet ground state for the isolated Fe(II)-porphyrin molecule. Also, using a ligated porphyrin belonging to the iron porphyrin carbene class of molecules, we demonstrate by combining the CASSCF and AC0 methods that geometrical changes outside the porphyrin core cannot be over- looked. 1

Die Mukaiyama-Aldolreaktion ist die Umsetzung eines Silylenolethers mit einer Carbonylverbindung in Gegenwart einer Lewis-Säure. Diese Reaktion ist eine wichtige Methode zur Knüpfung einer Kohlenstoff-Kohlenstoff-Bindung in der Organischen Chemie. In der vorliegenden Arbeit wird mittels quantenchemischer Methoden ein Einblick in den Mechanismus der Reaktion und die Ursachen der Enantioselektivität gegeben. Ausgehend von der unkatalysierten Reaktion wurde der Mechanismus der von kleineren achiralen Lewis-Säuren wie BF3 und TiCl4 katalysierten bzw. vermittelten Reaktion bearbeitet. Mit dem NEB-Verfahren zur Berechnung des Reaktionsmechanismus der enantioselektiv katalysierten Reaktion kam eine neuartige Möglichkeit zur Optimierung von Reaktionswegen zum Einsatz. Es konnte gezeigt werden, dass die Optimierung auch sehr komplexer Reaktionswege möglich ist. So wurde der gesamte katalytische Cyclus der Ti-BINOL katalysierten Reaktion berechnet, wobei sich der Einsatz der DFTB-Methode (density-functional based tight-binding method) zur Berechnung des Systems als sehr gut geeignet erwies. Die Leistungsfähigkeit der DFTB Methode konnte im Vergleich mit den geometrischen Daten aus Röntgenkristallstrukturanalysen nachgewiesen werden. Die Richtung der stereochemischen Differenzierung konnte in Übereinstimmung mit den experimentellen Ergebnissen bestimmt werden. Aus diesem Ergebnis war es möglich, ein schematisches Modell zu entwickeln, das die Ursache der Selektivität veranschaulicht.

This thesis is focused on preparation and study of new compounds of chosen organic bases with potential use in nonlinear optics. 2-amino-5-nitropyrimidine, 2-amino-4-methylpyrimidine and their salts with inorganic and organic acids are compounds of the main interest. Diffraction and vibrational-spectroscopic methods of characterization were used in combination with quantum chemical calculation methods. Another aim of this thesis was preparation of new salts of chosen pyrimidine derivates with the use of methylsulphonic acid. Part of this section is devoted to completion of pyridinium methylsulphonate phase transition and nonlinear optical property studies.

Title: Theory and Applications of Optical Activity of Biomolecules Author: Monika Krupová Supervisor: prof. RNDr. Petr Bouř, DSc. Institutions: Faculty of Mathematics and Physics, Charles University, and Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic Abstract: This thesis describes how we used several chiroptical spectroscopic methods to study chiral molecules: vibrational circular dichroism (VCD), circularly polarized luminescence (CPL) and magnetic circular dichroism (MCD). VCD and induced lanthanide CPL were used to study the structure of amyloid protein fibrils. We found out that VCD is very sensitive to their structure and supramolecular chirality. It could be used to distinguish between various polymorphic fibrils. On the other hand, induced lanthanide CPL provided information on the local structure. VCD was also used to study the hydration polymorphism of nucleoside crystals. Due to the crystal packing, the VCD signal was strong and specific for different types of crystals. Finally, electronic structure of hydrated Ln3+ ions was studied by MCD. Molecular dynamics simulations together with crystal field theory (CFT) and multistate complete active space calculations with second order perturbation correction (MS-CASPT2) were used to interpret the spectra. CFT...

Die Mukaiyama-Aldolreaktion ist die Umsetzung eines Silylenolethers mit einer Carbonylverbindung in Gegenwart einer Lewis-Säure. Diese Reaktion ist eine wichtige Methode zur Knüpfung einer Kohlenstoff-Kohlenstoff-Bindung in der Organischen Chemie. In der vorliegenden Arbeit wird mittels quantenchemischer Methoden ein Einblick in den Mechanismus der Reaktion und die Ursachen der Enantioselektivität gegeben. Ausgehend von der unkatalysierten Reaktion wurde der Mechanismus der von kleineren achiralen Lewis-Säuren wie BF3 und TiCl4 katalysierten bzw. vermittelten Reaktion bearbeitet. Mit dem NEB-Verfahren zur Berechnung des Reaktionsmechanismus der enantioselektiv katalysierten Reaktion kam eine neuartige Möglichkeit zur Optimierung von Reaktionswegen zum Einsatz. Es konnte gezeigt werden, dass die Optimierung auch sehr komplexer Reaktionswege möglich ist. So wurde der gesamte katalytische Cyclus der Ti-BINOL katalysierten Reaktion berechnet, wobei sich der Einsatz der DFTB-Methode (density-functional based tight-binding method) zur Berechnung des Systems als sehr gut geeignet erwies. Die Leistungsfähigkeit der DFTB Methode konnte im Vergleich mit den geometrischen Daten aus Röntgenkristallstrukturanalysen nachgewiesen werden. Die Richtung der stereochemischen Differenzierung konnte in Übereinstimmung mit den experimentellen Ergebnissen bestimmt werden. Aus diesem Ergebnis war es möglich, ein schematisches Modell zu entwickeln, das die Ursache der Selektivität veranschaulicht.

Объектами исследования являются 2-замещеные хиноксалины. Целью данной работы является изучение химических свойств хиноксалина и его производных. В работе рассматривалось восстановление производных хиноксалина (окислительно-восстановительные свойства, потенциал восстановления, ЭПР спектр, квантово-химический расчеты). Сравнение восстановительных свойств синтезированного ряда производных хиноксалина. Определено количество электронов, участвующих в процессе восстановления производных хиноксалина. Смоделирован процесс восстановления. Доказан одноэлектронный переход хиноксалина. Далее приводится количественное определение производных хиноксалина вольтамперометрическим способом. Изучение свойств хиноксалина является важной задачей, так как вновь синтезированные производные хиноксалинов проявляют химическую и биологическую активность. Из-за значительного увеличения вирусов и необходимости поиска новых лекарственных препаратов, исследование производных хиноксалинов и их химической активности, а также количественное определение новых синтезированных хиноксалинов является нужной и важной задачей. В работе доказан одноэлектронный переход хиноксалина экспериментальными и расчетными методами (ЭПР спектр, квантово-химический расчеты, хроноамперометрия). Также был построен ряд восстановительной активности хиноксалина и его производных. После чего были выбраны производные для количественного определения вольтамперометрическим методом. Результаты показали, что одноэлектронный переход хиноксалина свойственен и для его производныхРазработаны методики количественного определения формальдегида в объектах фармации на примере ЛП «Эндофальк» и товарного уротропина от ПАО «Метафракс». Правильность полученных результатов подтверждена сравнением с результатами независимых методов анализа, прописанных в ФС РФ XIV издания на субстанции уротропина и «Макрогола 3350». / The object of research is 2-substituted quinoxalines. The goal of this work is to study the chemical properties of quinoxaline and its derivatives. This goal is divided into the following tasks: 1) Study of literature sources on the use of quinoxaline derivatives, chemical and electrochemical properties of these compounds, possible published methods for quantitative determination of quinoxaline derivatives by voltammetric method. 2) Study of reducing properties of compounds of quinoxalin derivatives (redox properties, reduction potential, EPR spectrum, quantum chemical calculations). Comparison of reducing properties of a synthesized series of quinoxaline derivatives. 3) Determination of the number of electrons involved in the reduction of quinoxaline derivatives. Modeling the reduction process. Proof of a single-electron quinoxalin transition. 4) Quantitative determination of quinoxalin derivatives by voltammetric methods.