Many bacteria use inorganic nitrogen and sulfur compounds for energy metabolism. These compounds are often toxic and so bacteria must adapt to survive their deleterious effects. Bacteria use specific proteins in order to metabolise, sense and detoxify these compounds. In this thesis protein interactions with inorganic nitrogen and sulfur compounds are examined at the mechanistic level. Intermediates in the Sox sulfur oxidation pathway are covalently attached to a cysteine on the swinging arm of the substrate carrier protein SoxYZ. An interaction between the Sox pathway enzyme SoxB and the carrier protein SoxYZ is demonstrated. A crystal structure of a trapped SoxB-SoxYZ complex at 3.3 Å resolution identifies two sites of interaction, one between the SoxYZ carrier arm and the SoxB active site channel and the other at a patch distal to the active site. The presence of a distal interaction site suggests a mechanism for promiscuous specificity in the protein-protein interactions of the Sox pathway. Using biophysical methods it is shown that SoxB distinguishes between the substrate and product forms of the carrier protein through differences in interaction kinetics and that the carrier arm-bound substrate group is able to out-compete the adjacent C-terminal carboxylate for binding to the SoxB active site. The thiosulfate dehydrogenase TsdA has an unusual His/Cys coordinated heme. TsdA catalyses oxidative conjugation of two thiosulfate molecules to form tetrathionate. Mass spectrometry and UV/visible spectroscopy are used to identify an S-thiosulfonate reaction intermediate which is covalently attached to the cysteine heme ligand. A catalytic mechanism for TsdA is proposed using a crystal structure of TsdA at 1.3 Å resolution alongside site-directed mutagenesis of active site residues. Nitric oxide is produced by the mammalian immune response to kill bacterial pathogens. Part of the killing mechanism occurs through the reaction of nitric oxide with protein-bound iron-sulfur clusters. However, the same type of reaction is also exploited by nitric oxide-sensing bacterial proteins. An infrared spectroscopy approach is developed to detect the products of iron-sulfur protein nitrosylation. Using this methodology it is shown that the presence of trace O2 strongly impacts which products are formed in these nitrosylation reactions. These observations are of physiological relevance because bacteria are often exposed to NO under aerobic conditions during an immune response.

Une approche synthétique a été développée pour préparer les phtalocyanines dimériques de fer azote ponté substituées par les substituants alkylesulfoniles attracteurs d’électrons. Six nouvelles phtalocyanines avec des petits substituants (méthylesulfonile, éthylesulfonile et hexylesulfonile) et des gros substituants (t-butylesulfonile, adamantylesulfonile et cyclohexylesulfonile) ont été préparées et caractérisées par ionisation électrospray (ESI-MS), UV-vis, FT-IR et RPE. Deux complexes (avec substituants hexylesulfoniles et t-butylesulfoniles) ont été caractérisés par spectroscopie Mössbauer, spectroscopie photoélectronique de rayons X (XPS) et par spectroscopie d’absorption des rayons X (XANES, EXAFS, spectroscopie d’émission Kβ haute résolution). Il a été montré que l’état électronique de fer de ces complexes dépend de la taille de substituants. Les phtalocyanines de fer à l’azote ponté avec les gros substituants (t-butylesulfonile, adamantylesulfonile et cyclohexylesulfonile) sont cationiques (PcFeIVNFeIVPc)+N3-, tandis que les complexes avec les substituants plus gros (t-butylesulfonyles, adamantylesulfonyles et cyclohexylesulfonyles) sont non-chargés, formellement PcFeIIINFeIVPc. Les propriétés catalytiques des six complexes ont été étudiées en utilisant du butyle hydroperoxyde comme oxydant en oxydation de toluène, de p-xylène et des alcools. Ce travail montre l’efficacité des phtalocyanines dimériques de fer azote ponté substituées par les groupements alkylesulfoniles attracteurs d’électrons comme catalyseurs pour oxydation dans les conditions favorables pour les applications industrielles propres / The synthetic approach was developed for the preparation of N-bridged diiron phthalocyanines substituted by different electron-withdrawing alkylsulfonyl substituents. Six novel phthalocyanines bearing small (methylsulfonyl, ethylsulfonyl and hexylsulfonyl) and bulky (t-butylsulfonyl, adamantylsulfonyl and cyclohexylsulfonyl) substituents have been prepared and characterized by electrospray ionization mass spectrometry (ESI-MS), UV-Vis, FT-IR and EPR. Two complexes (with hexylsulfonyl and t-butylsulfonyl substituents) were characterized in addition by Mössbauer techniques, X-ray photoelectron spectroscopy (XPS) and Fe K-edge X-ray absorption spectroscopy (XANES, EXAFS, high resolution Kβ emission spectroscopy). It has been evidenced that the electronic state of iron in these complexes depends on the size of the substituents. While N-bridged diiron phthalocyanines having methylsulfonyl, ethylsulfonyl and hexylsulfonyl substituents are cationic (PcFeIVNFeIVPc)+N3- complexes, N-bridged diiron phthalocyanines with bulkier t-butylsulfonyl, adamantylsulfonyl and cyclohexylsulfonyl substituents are formally neutral PcFeIIINFeIVPc species. The catalytic properties of six N-bridged diiron phthalocyanines have been studied, using tert-butyl hydroperoxide (tBuOOH) as the oxidant in the oxidation of toluene, p-xylene as well as in the oxidation of various alcohols. This thesis demonstrates the efficiency of N-bridged diiron phthalocyanines substituted by electron-withdrawing alkylsulfonyl groups as oxidation catalysts, in conditions required by environmental and industrial preoccupations

In light of its rapidly growing energy demand, human society has an urgent need to become much more strongly reliant on renewable and sustainable energy carriers. Molecular hydrogen made from water with solar energy could provide an ideal case. The development of inexpensive, robust and rare element free catalysts is crucial for this technology to succeed. Enzymes in nature can give us ideas about what such catalysts could look like, but for the directed adjustment of any natural or synthetic catalyst to the requirements of large scale catalysis, its capabilities and limitations need to be understood on the level of individual reaction steps. This thesis deals with kinetic and mechanistic investigations of photo- and electrocatalytic hydrogen production with natural and synthetic molecular catalysts. Photochemical hydrogen production can be achieved with both E. coli Hyd-2 [NiFe] hydrogenase and a synthetic dinuclear [FeFe] hydrogenase active site model by ruthenium polypyridyl photosensitization. The overall quantum yields are on the order of several percent. Transient UV-Vis absorption experiments reveal that these yields are strongly controlled by the competition of charge recombination reactions with catalysis. With the hydrogenase major electron losses occur at the stage of enzyme reduction by the reduced photosensitizer. In contrast, catalyst reduction is very efficient in case of the synthetic dinuclear active site model. Here, losses presumably occur at the stage of reduced catalyst intermediates. Moreover, the synthetic catalyst is prone to structural changes induced by competing ligands such as secondary amines or DMF, which lead to catalytically active, potentially mononuclear, species. Investigations of electrocatalytic hydrogen production with a mononuclear catalyst by cyclic voltammetry provide detailed kinetic and mechanistic information on the catalyst itself. By extension of existing theory, it is possible to distinguish between alternative catalytic pathways and to extract rate constants for individual steps of catalysis. The equilibrium constant for catalyst protonation can be determined, and limits can be set on both the protonation and deprotonation rate constant. Hydrogen bond formation likely involves two catalyst molecules, and even the second order rate constant characterizing hydrogen bond formation and/or release can be determined.

No description available.

博士(工学) / Doctor of Philosophy in Engineering / 同志社大学 / Doshisha University

Plusieurs processus photo-induits d'énergie et de transfert d'énergie ont été étudiés en solution et dans le film par spectroscopie d'absorption transitoire et de fluorescence pour deux types de cellules solaires. Combinés avec d'autres expériences et par une analyse globale, ces phénomènes ultrarapides avec leur durée de vie ont été observés et les scénarios photo-induits ont été déterminés. La compréhension approfondie des matériaux moléculaires pourrait aider les chimistes à concevoir des cellules solaires efficaces. La première étude sur l'influence des conceptions chimiques sur la formation et la séparation des charges implique différentes fractions donneuses et différents solvants et les résultats ont été expliqués par la théorie de Marcus-Jortner combinée avec le calcul quantique. La deuxième étude porte sur les complexes Fe (II) comme photosensibilisateurs pour les cellules solaires sensibilisées aux colorants. On a étudié une série de complexes de Fe (II) homo et hétérotéptiques avec des ligands de carbène et de terpyridine en solution et dans le film. La durée de vie de l'état de transfert de la charge métal-ligand du triplet d'enregistrement du complexe Fe (II) est obtenue en solution. La compréhension du film est en cours. / Various photo-induced energy and energy transfer processes were investigated in solution and in the film by transient absorption and fluorescence spectroscopies for two types of solar cells. Combined with other experiments and through a global analysis, those ultrafast phenomena with their lifetimes were observed and the photo-induced scenarios were determined. The insight understanding of molecular materials could help chemists to design efficient solar cells.The first study about the influence of chemical designs on charge formation and separation involves different donor moieties and different solvents and the results were explained by Marcus-Jortner theory combined with quantum calculationThe second investigation is about Fe(II) complexes as photosensitizers for dye-sensitized solar cells. A series of homo- and heteroleptic Fe(II) complexes with carbene and terpyridine ligands have been studied in solution and in the film. The record triplet metal-to-ligand charge transfer state lifetime of Fe(II) complex is achieved in solution. The further understanding in the film is in progress.