Mechanisch flexible Kristalle können gebogen werden, ohne dabei zu zerbrechen. Je nach Art der Verformung können sie als mechanisch plastisch (irreversibel) oder elastisch (reversibel) biegbar eingestuft werden. Die verbesserten mechanischen Eigenschaften machen sie zu einer faszinierenden neuen Klasse von Materialien. Sie sind vielversprechend für die Entwicklung neuer funktioneller Bauelemente wie zum Beispiel fortschrittliche optoelektronische Elemente, intelligente Sensoren und künstliche Muskeln. Die derzeitigen Herausforderungen auf dem Forschungsgebiet der mechanisch flexiblen Kristalle umfassen ihre eingeschränkte Verfügbarkeit, ein fehlendes Verständnis für den Biegemechanismus und die Erforschung möglicher Anwendungen. Die vorliegende Arbeit befasst sich mit allen drei Bereichen und zielt darauf ab, 1) robuste Strategien zu entwickeln, um den Zugang zu mechanisch flexiblen Kristallen zu erleichtern, 2) ein atomistisches Biegemodell für einen mechanisch elastischen Kristall auf Grundlage von μ-fokussierter Einkristall-Röntgenbeugung und Dichtefunktionaltheorie-Berechnungen zu entwickeln und 3) die Lichtleitereigenschaften mechanisch flexibler Kristalle zu untersuchen, einschließlich der Verwendung elastischer und plastischer Kristalle und der Herstellung einer miniaturisierten photonisch integrierten Schaltung. / Mechanically flexible crystals can be bent without breaking. Depending on the nature of the deformation, they can be classified as mechanically plastic (irreversible) or elastic (reversible) bendable. The improved mechanical properties make them a fascinating new class of materials. They are promising materials for the development of new functional materials, including advanced optoelectronics, smart sensors, and artificial muscles. Current challenges in the research field of mechanically flexible crystals are the limited accessibility of these materials, the lack of mechanistic understanding of the bending mechanism, and the investigation of potential applications. The present work addresses all three areas with the aim of 1) developing robust strategies to facilitate access to mechanically flexible crystals, 2) developing an atomistic bending model for mechanically elastic crystals based on μ-focused single crystal X-ray diffraction (SCXRD) and density functional theory (DFT) calculations, and 3) investigating the waveguide properties of mechanically flexible crystals, including the use of elastic and plastic crystals and the fabrication of a micro-scale photonic integrated circuit.

Die Entdeckung von neuen Materialien mit speziellen funktionalen Eigenschaften ist eins der wichtigsten Ziele in den Materialwissenschaften. Das Screening des strukturellen und chemischen Phasenraums nach potentiellen neuen Materialkandidaten wird häufig durch den Einsatz von Hochdurchsatzmethoden erleichtert. Schnelle und genaue Berechnungen sind eins der Hauptwerkzeuge solcher Screenings, deren erster Schritt oft Geometrierelaxationen sind. In Teil I dieser Arbeit wird eine neue Methode der eingeschränkten Geometrierelaxation vorgestellt, welche die perfekte Symmetrie des Kristalls erhält, Resourcen spart sowie Relaxationen von metastabilen Phasen und Systemen mit lokalen Symmetrien und Verzerrungen erlaubt. Neben der Verbesserung solcher Berechnungen um den Materialraum schneller zu durchleuchten ist auch eine bessere Nutzung vorhandener Daten ein wichtiger Pfeiler zur Beschleunigung der Entdeckung neuer Materialien. Obwohl schon viele verschiedene Datenbanken für computerbasierte Materialdaten existieren ist die Nutzbarkeit abhängig von der Darstellung dieser Daten. Hier untersuchen wir inwiefern semantische Technologien und Graphdarstellungen die Annotation von Daten verbessern können. Verschiedene Ontologien und Wissensgraphen werden entwickelt anhand derer die semantische Darstellung von Kristallstrukturen, Materialeigenschaften sowie experimentellen Ergebenissen im Gebiet der heterogenen Katalyse ermöglicht werden. Wir diskutieren, wie der Ansatz Ontologien und Wissensgraphen zu separieren, zusammenbricht wenn neues Wissen mit künstlicher Intelligenz involviert ist. Eine Zwischenebene wird als Lösung vorgeschlagen. Die Ontologien bilden das Hintergrundwissen, welches als Grundlage von zukünftigen autonomen Agenten verwendet werden kann. Zusammenfassend ist es noch ein langer Weg bis Materialdaten für Maschinen verständlich gemacht werden können, so das der direkte Nutzen semantischer Technologien nach aktuellem Stand in den Materialwissenschaften sehr limitiert ist. / The discovery of novel materials with specific functional properties is one of the highest goals in materials science. Screening the structural and chemical space for potential new material candidates is often facilitated by high-throughput methods. Fast and still precise computations are a main tool for such screenings and often start with a geometry relaxation to find the nearest low-energy configuration relative to the input structure. In part I of this work, a new constrained geometry relaxation is presented which maintains the perfect symmetry of a crystal, saves time and resources as well as enables relaxations of meta-stable phases and systems with local symmetries or distortions. Apart from improving such computations for a quicker screening of the materials space, better usage of existing data is another pillar that can accelerate novel materials discovery. While many different databases exists that make computational results accessible, their usability depends largely on how the data is presented. We here investigate how semantic technologies and graph representations can improve data annotation. A number of different ontologies and knowledge graphs are developed enabling the semantic representation of crystal structures, materials properties as well experimental results in the field of heterogeneous catalysis. We discuss the breakdown of the knowledge-graph approach when knowledge is created using artificial intelligence and propose an intermediate information layer. The underlying ontologies can provide background knowledge for possible autonomous intelligent agents in the future. We conclude that making materials science data understandable to machines is still a long way to go and the usefulness of semantic technologies in the domain of materials science is at the moment very limited.

No description available.

Lanthanide-based nanoparticles are of interest for optical displays, catalysis, telecommunication, bio-imaging, magnetic resonance imaging, multimodal imaging, etc. These applications are possible partly because the preparation of lanthanide-based nanoparticles has made tremendous progress. Now, nanoparticles are routinely being made with a good control over size, crystal phase and even shape. Despite the achievements, little attention is given to the fundamental physical chemistry aspects, such as crystal structure, architecture, cation exchange, etc. The results of the study on the crystal structures of LnF3 nanoparticles show that the middle GdF3 and EuF3 nanoparticles have two crystal phases, which has then been tuned by doping with La3+ ions. However, the required doping level is very different from the bulk. While the results for the bulk are well explained by thermodynamic calculations, kinetics is actually responsible for the results of the undoped and doped GdF3 and EuF3 nanoparticles. The attempt to make LnF3 core-shell nanoparticles led to the finding of cation exchange, a phenomenon that upon exposure of LnF3 nanoparticles to an aqueous solution containing Ln3+ ions, the Ln3+ ions in the nanoparticles are replaced by the Ln3+ ions in the solution. The consequence of the cation exchange is that LnF3 core-shell nanoparticles are unlikely to form in aqueous media using a core-shell synthesis procedure. It has also been verified that nanoparticles synthesized using an alloy procedure do not always have an alloy structure. This means that the core-shell and alloy structure of nanoparticles in the literature may not be true. The investigation of the architecture of nanoparticles synthesized in aqueous media is extended to those synthesized in organic media. The dopant ion distribution in NaGdF4 nanoparticles has been examined. It has been found that they don’t have the generally assumed statistical dopant distribution. Instead, they have a gradient structure with one type of Ln3+ ions more concentrated towards the center and the other type more concentrated towards the surface of the nanoparticles. With the understanding of these physical insights, lanthanide-based core-shell nanoparticles are prepared using the cation exchange. These core-shell nanoparticles containing a photoluminscent core and a paramagnetic shell are promising candidates for multimodal imaging. / Graduate

L'objectif de cette thèse est la synthèse d'un matériau modèle de la dioxygénase à manganèse, une enzyme oxydant des cycles aromatiques type catéchol grâce au dioxygène. Pour ce faire, nous avons découpé notre stratégie trois étapes constituant les différents chapitres de ce manuscrit : - La synthèse et la caractérisation des complexes de manganèse(II) avec des ligands tridentates. - L'optimisation d'une synthèse de silice mésoporeuse par micro-onde. - La fonctionnalisation des matériaux et le greffage des complexes, ainsi que les tests catalytiques préliminaires.Les ligands utilisés sont des amines tertiaires avec un bras alcyne et deux coordinants type pyridine, imidazole ou carboxylate. Ces complexes ont été cristallisés et/ou caractérisés par IR, RPE, SQUID et voltampérométrie cyclique. La synthèse par micro-onde, basée sur des conditions de synthèse hydrothermale classiquenous a permis de réduire le temps de synthèse d'un jour à deux heures. La qualité de ces nouveaux matériaux a été vérifiée par IR, ATG, BET, et DRX sur poudre. Ces matériaux sont ensuite bifonctionnalisés en utilisant une méthode de pochoir moléculaire avec une fonction azoture pour le greffage du complexe via "click-chemistry" ainsi qu'une fonction pyridine ou triméthylsilyle pour créer un environnement coordinant ou non proche du métal.Ces complexes et matériaux sont actifs dans l'oxydation du catéchol. / The objective of this work is the synthesis of model material for manganese dioxygenase which is an enzyme that oxidizes catechol-like substrates with dioxygen. Our strategy comprises three main steps that form the different chapters of this thesis: - Synthesis and characterization of manganese(II) complexes with tridentate ligands. - Optimization of a microwave-assisted synthesis of a mesoporous silica. - Functionalization of these materials and complex grafting, as well as preliminary catalytic tests. The ligands used are tertiary amines containing an alkyne arm and two coordinating arms with functions such as pyridine, imidazole or carboxylate. The complexes were crystallized and/or characterized by IR, EPR, SQUID and cyclic voltamperometry. Microwave synthesis, based on the conditions of classical hydrothermal synthesis, allowed us to reduce the synthesis time from one day to two hours. The quality of these new materials was verified by IR, TGA, BET and powder XRD. These materials are then bi-functionalized using a molecular stencil patterning mehod with a an azide function for complex grafting via click chemistry and a function pyridine or trimethylsilyl to control the coordinating ability of the metal environment. These complexes and materials are active in catechol oxidation with O2.

Made available in DSpace on 2017-07-21T19:25:54Z (GMT). No. of bitstreams: 1 Wellington Claiton Leite.pdf: 3789073 bytes, checksum: f4c16b4260fbd54f4eada652038ae5bc (MD5) Previous issue date: 2016-09-06 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / The bacterial RecA protein plays a role in the complex system of DNA damage repair. In the presence of ATP, RecA proteins polymerize onto single-strand DNA (ssDNA) as righthanded helical nucleoprotein laments, and catalyze strand exchange reaction between the ssDNA and homologous double-strand DNA (dsDNA) molecules. These activities are supported or stimulated by accessory proteins, as the single-stranded binding protein (SSB).Here, we report a functional and structural characterization of the Herbaspirillum seropedicae RecA protein (HsRecA).We report the crystal structure of HsRecA-ADP/ATP complex to 1.7 Å of atomic resolution. HsRecA protein contains a small N-terminal domain, a central core ATPase domain and a large C-terminal domain, similarly to homologous RecA proteins. Comparative structural analysis showed that the N-terminal polymerization motif of archaeal and eukaryotic RecA family proteins are also present in bacterial RecAs. The bacterial polymerization motif contains the sequence SV/IMR/KLG which interacts with the core ATPase domain residues DNLLLV/CS. In the inactive RecA, it is a loop - strand interaction, respectively, while in the active RecA it becomes a dyad strand. In both RecA forms, the polymerization motif seems to stabilize the subunitsubunit interface by hydrophobic interactions. The methionine of this motif may play an important role in the stability and formation of a right-handed helical nucleoprotein lament. The ATPase activity and the structure of the nucleoprotein lament of HsRecA and Escherichia coli RecA (EcRecA) were analyzed in the presence and absence of SSB. When SSB was added after RecA+ssDNA, HsRecA and EcRecA showed similar ATPase activity and nucleolament structure. However, when SSB was either not included or it was added before RecA+ssDNA, the HsRecA showed higher ATPase activity and formed longer nucleoprotein laments than EcRecA. Thus, HsRecA protein is more ecient at displacing SSB from ssDNA than EcRecA protein. HsRecA promoted DNA exchange more eficiently: a greater yield of nicked circular products were obtained in a shorter time. Reconstruction of electrostatic potential from the hexameric structure of HsRecAADP/ ATP revealed a high positive charge along the inner side, which is consistent with the fact that ssDNA binds inside the filament. It may explain the enhance capacity of HsRecA protein to bind ssDNA, forming a contiguous nucleoprotein filament, displace SSB and promote eficiently the DNA strand exchange reaction. Keywords: RecA, Crystallography, RecA nucleoprotein filament, ATPase activity, DNA strand exchange, crystal structure, structural analysis. / A proteína RecA bacteriana desempenha um importante papel no complexo sistema de reparo de danos ao DNA. Na presença de ATP, a proteína RecA se auto-polimeriza sobre o DNA simples ta (ssDNA) (do inglês single-strand DNA (ssDNA)) como um lamento de nucleoproteína helicoidal, cataliza a reação de troca de fitas entre as moléculas ssDNA e a ta de DNA dupla fita homóloga (dsDNA) (do inglês double-strand DNA (dsDNA)). Estas atividades são suportadas ou estimuladas por proteínas acessórias, como a proteína ligadora de ssDNA SSB (do inglês single-stranded binding protein (SSB)). Neste trabalho é apresentado a caracterização estrutural e funcional da proteína RecA da bactéria Herbaspirillum seropedicae. A estrutura tridimensional do complexo HsRecA-ADP/ATP foi resolvida numa resolução 1,7 Å. A estrutura monomérica da proteína HsRecA consiste em um pequeno domínio N-terminal, um domínio central contendo um sitío ATPásico e e um grande domínio C-terminal, similar com proteínas RecAs homólogas. Análises estruturais comparativas mostraram que o motivo de polimerização da região N-terminal de proteí- nas da familia RecA que incluem archaea e eucariotos, também está presente na proteína RecA bacteriana. O motivo de polimerização da região N-terminal de bactérias contêm a sequência de resíduos (Serina, Valina ou Isoleucina, Metionina, Arginina ou Lisina, Leucina, Glicina) que interage com a sequência de resíduos do core ATPásico (Aspartato, Asparagina, Leucina, Leucina, Leucina, Valina, Cisteína, Serina). Na proteína RecA inativa esta interação é do tipo loop - strand, respectivamente, enquanto na proteína RecA ativa essa interação se torna uma dupla -strand. Em ambas formas da RecA, o motivo de polimerização parece estabilizar a interface subunidade-subunidade por interações hidrofóbicas. No motivo N-terminal a presença de uma Metionina altamente conservada talvez desempenha um importante papel na estabilidade e formação do lamento de nucleoproteína. A atividade ATPásica e a estrutura do lamento de nucleoproteína da proteína HsRecA e da Escherichia coli RecA (EcRecA) foram analisadas na presença e ausência da proteína SSB. Quando a SSB foi adicionada após RecA+ssDNA, as proteínas HsRecA e EcRecA mostraram similar atividade ATPásica e estrutura de nucleo lamento. Entretanto, quando a SSB não estava incluída ou quando adicionada anteriormente a adição RecA+ssDNA, a proteína HsRecA mostrou maior atividade ATPásica e formou maiores lamentos de nucleoproteína que a proteína EcRecA. Ainda, a proteína HsRecA é mais eficiente em deslocar a SSB do ssDNA que a proteína EcRecA. A proteína HsRecA também promove a reação de troca de fitas mais eficientemente: uma maior quantidade de produtos duplex substrato convertido em duplex circular foram obtidos em um curto intervalo de tempo. A reconstrução do potencial eletrostático da estrutura hexamérica da proteína HsRecA revelou uma maior densidade de cargas positivas no seu interior, que é consistente com o fato que o ssDNA ligar-se internamente ao filamento hexamérico. Isto talvez possa explicar capacidade melhorada da proteína HsRecA ligar-se ao ssDNA, formando um continuo filamento de nucleoproteína, deslocando a SSB e ainda promovendo de forma eficiente a reação de trocas de fitas.

Les films de ZrO2 pur sont déposés par MOCVD (Metal-Organic Chemical Vapor Deposition) en variant de nombreux paramètres du processus. L’influence des conditions de dépôt sur l’évolution de la microstructure (morphologies, structure cristalline/phase, texture et contrainte résiduelle) a été étudiée et clarifiée. Par des analyses approfondies des résultats expérimentaux, trois mécanismes typiques de croissance de dépôt de ZrO2 ont été proposées. Les contraintes de croissance de compression sont en relation directe avec la diffusion atomique et la quantité d’espèces piégées dans les films. La formation de la texture cristallographique est complexe et deux types de textures ont été analysées dans la phase tétragonale : la texture de fibre {1 1 0}t est contribuée par l’effet superplastique des nano-cristallites de ZrO2 et par la contrainte de croissance de compression ; tandis que la morphologie en facette est due à la croissance concurrentielle de différents plans cristallographiques. La stabilisation de la phase tétragonale de ZrO2 a été analysée et discutée. En plus de la taille critique des cristallites, la stabilisation de la phase tétragonale est favorisée par deux autres mécanismes : la grande quantité des défauts cristallins et la morphologie des cristallites. / Pure ZrO2 films were deposited by MOCVD (Metal-Organic Chemical Vapor Deposition) by varying the deposition parameters over large range. The influence of deposition conditions on the evolution of the microstructure (morphology, crystal structure / phase, texture and residual stress) was studied and clarified. Through careful study and analysis of experimental results, three typical mechanisms of deposition of ZrO2 have been proposed. The compressive growth stresses are directly related to atomic diffusion and the trapped-in effects during deposition. The formation of crystallographic texture is complex and two types of textures were analyzed in the tetragonal phase: the fiber texture {1 1 0}t is supposed to be the result of the effect of superplastic of ZrO2 nano-crystallites and the compressive growth stress, while the facet morphology (the {0 1 1}t fiber) is due to the competitive growth of different crystallographic planes. The stabilization of the tetragonal phase of ZrO2 was analyzed and discussed. In addition to the critical size of crystallites, the stabilization of the tetragonal phase can be favored by two mechanisms: the large amount of crystal defects and morphology of crystallites.

A qualidade óssea em grandes animais é avaliada pela densidade mineral óssea (DMO) utilizando a técnica de densitometria óptica em imagens radiográficas; o objetivo desse trabalho foi avaliar e comparar a qualidade óssea baseada na microarquitetura de uma forma inédita. Foram selecionados 20 bovinos, 10 da raça Canchim e 10 da raça Nelore, com controle dos processos biológicos e bioquímicos do nascimento até o abate aos 24 meses de idade, antes de entrarem na fase adulta. O osso metatarsal foi escolhido por suportar maior carga e amostras da diáfise do osso cortical seco foram obtidas. A avaliação da estrutura cristalina de ossos metatarsais secos foi realizada utilizando difração de raios X com a aplicação do método de refinamento de Rietveld, avaliando parâmetros de rede, tamanho de cristalito e microdeformação. A técnica de nanoindentação permitiu avaliar os módulos de elasticidade e valores de nanoindentação. A composição química razão cálcio e fósforo do material, resistência à deformação plástica, valores de microdureza, e imagens de microscopia eletrônica de varredura e microscopia óptica foram realizadas. A comparação entre os resultados das duas raças, Canchim e Nelore, dos valores de parâmetros de rede da estrutura cristalina da hidroxiapatita, tamanho de cristalito, microdeformações, relação cálcio e fósforo, microdurezas Vickers/Knoop, nanodureza Vickers e módulo de elasticidade indicaram que a qualidade óssea das raças Canchim e Nelore é estatisticamente semelhante para 30% dos parâmetros estudados e que para os demais 70% dos parâmetros estudados não há semelhança. / The bone quality in large animals is evaluated by bone mineral density (BMD) using the optical densitometry technique in radiographic images; The objective of this study was to evaluate and compare bone quality based on microarchitecture unpublished. Twenty bovines were selected, 10 from the Canchim breed and 10 from the Nelore breed, with control of the biological and biochemical processes from birth to slaughter at 24 months of age, before entering adulthood. The metatarsal bone was chosen because it supported higher load and samples of the diaphysis of the dry cortical bone were obtained. The evaluation of the crystalline structure of dry metatarsal bones was performed using X - ray diffraction with the application of the Rietveld refinement method, evaluating network parameters, crystallite size and microdeformation. The nanoindentation technique allowed to evaluate the modulus of elasticity and nanoindentation values. The chemical composition calcium and phosphorus ratio of the material, resistance to plastic deformation, values of microhardness, and scanning electron microscopy images and optical microscopy were performed. The comparison between the results of the two races, Canchim and Nelore, of the network parameter values of the hydroxyapatite crystal structure, crystallite size, microdeformations, calcium and phosphorus ratio, Vickers/Knoop microhardness, Vickers nanodness and modulus of elasticity indicated that Quality of the Canchim and Nelore races is statistically similar for 30% of the studied parameters and that for the ofter 70% of the studied parameters there is no similarity.

<p>Materials with new or improved properties are crucial for technological development. To provide the foundation for future successful products, it is important to prepare and characterise new chemical compounds that could show unusual properties. The properties of magnetic materials are closely related to their crystal, magnetic and electronic structures. This thesis focuses on the novel synthesis and structural characterisation of a number of new ternary or <i>pseudo</i>-ternary silicides and germanides of manganese with iridium, cobalt or palladium. To provide a more complete picture of the complex magnetic properties, crystal and magnetic structure refinements by the Rietveld method of X-ray and neutron powder diffraction data are complemented by single-crystal X-ray diffraction, electron diffraction, magnetisation measurements and Reverse Monte Carlo simulations of magnetic short-range order. The experimental results are corroborated by first-principles electronic structure and total energy calculations. </p><p>A commensurate non-collinear antiferromagnetic structure is found for most compounds of the solid solution Mn₃Ir_1-yCo_ySi_1-xGe_x. The non-collinearity is a result of geometric frustration in a crystal structure with magnetic Mn atoms located on a three-dimensional network of triangles. The close structural similarity to the β-modification of elemental manganese, which does not order magnetically, inspired a closer theoretical comparison of the Mn₃Ir_1-yCo_ySi_1-xGe_x propertieswith β-Mn.</p><p>Magnetic frustration is also observed for Mn₄Ir_7-xMn_xGe₆, and is an important factor underlying the dramatic change from commensurate antiferromagnetic order to spin glass properties induced by a small variation in Mn concentration. Magnetic short-range order with dominant antiferromagnetic correlation is observed for Mn₈Pd₁₅Si₇, and results from a random distribution of Mn atoms in-between the geometrically frustrated magnetic moments on the Mn octahedra. </p><p>An incommensurate cycloidal magnetic structure, observed for IrMnSi, is stabilised by an electronic structure effect, which also accounts for the non-collinearity of the Mn₃IrSi type magnetic structure.</p>

<p>The parasite <i>Echinococcus granulosus</i> causes hydatid disease, a major zoonosis. A fatty-acid-binding protein, EgFABP1, is important for the parasite, as it must acquire almost all its lipids from its environment or the host. The structure of EgFABP1 has been solved and refined to 1.6 Å resolution. The structure reveals that EgFABP1 has the 10-stranded β-barrel fold typical of the family of intracellular lipid-binding proteins. </p><p>Human semicarbazide-sensitive amine oxidase (SSAO; EC 1.4.3.6), also known as vascular adhesion protein-1, is a copper-containing monoamine oxidase that occurs both as a membrane-bound protein and in a soluble form in plasma. SSAO has been implicated in glucose transport in adipocytes, the differentiation of adipose cells and the leukocyte extravasation process. Toxic reaction products have been suggested to cause some of the vascular complications associated with diabetes and SSAO is therefore of pharmaceutical interest.</p><p>The structure of a truncated, soluble form of human SSAO has been determined to 2.5 Å resolution. The structure reveals that a leucine residue located adjacent to the active site could function as a gate controlling its accessibility. An RGD motif is displayed on the surface where it could be involved in integrin binding and possibly play a role in the shedding of SSAO from the membrane. Carbohydrate moieties are observed at five out of six potential N-glycosylation sites. Carbohydrates attached to Asn 232 flank the active site entrance and might influence substrate specificity. The structure also reveals a vicinal disulfide bridge, which we hypothesise could act as a redox switch involved in the protein’s mechanism of action. The structure of a complex of SSAO and the irreversible inhibitor 2-hydrazinopyridine has been solved and refined to 2.9 Å resolution. Both structures together will aid efforts to identify natural substrates, provide valuable information for the design of specific inhibitors and direct further studies. </p>