Microparticles produced from kafirin, the sorghum grain prolamin protein, by molecular selfassembly using coacervation with acetic acid solvent are vacuolated. They have shown considerable potential for encapsulation of antioxidants and for preparation of high quality free-standing bioplastic films. However, the functional quality of these kafirin microstructures needs to be improved to exploit their potential application, particularly as biomaterials. Wet heat, transglutaminase and glutaraldehyde treatments were used to modify the physical structure and chemical properties of the kafirin microstructures. Heat treatment (50–96°C) increased microparticle average size by up to four-fold to ≈20 μm, probably due to disulphide cross-linking of kafirin proteins. The vacuoles within these microparticles enlarged up to >10-fold, probably due to greater expansion of air within the microparticles with higher temperature, as the vacuoles are probably footprints of air bubbles. As with heat treatment, glutaraldehyde (10–30%) treatment resulted in oval microparticles, up to about four-fold larger than the control, probably due to covalent glutaraldehyde-polypeptide linkage. Transglutaminase (0.1–0.6%) treatment had only slight effect on the size and shape of microparticles, probably because kafirin has very low lysine content, inhibiting transglutaminase-catalysed cross-linking through ε-(-glutamyl)-lysine bonding. Surface morphology using atomic force microscopy indicated that the microparticles apparently comprised coalesced nanostructures. With heat and transglutaminase treatments, the microparticles seemed to be composed of round nanostructures that coalesced into random irregular shapes, indicative of non-linear protein aggregation. In contrast, with glutaraldehyde treatment, the nanostructures were spindle-shaped and had a unidirectional orientation, probably due to linear alignment of the nanostructures controlled by glutaraldehyde-polypeptide linkage. Thin (<50 μm) films prepared from kafirin microparticles and conventional cast kafirin films were compared in terms of their water stability and other related properties. Films cast from microparticles were more water-stable compared to conventional kafirin films, probably because the large vacuoles within the kafirin microparticles may have enhanced protein solubility in the casting solution, thereby improving the film matrix cohesion. The films prepared from microparticles treated with glutaraldehyde were more water-stable compared to the control, despite the loss of plasticizer, probably due to formation of the covalent glutaraldehyde-polypeptide linkages. The potential of modified kafirin microparticles to bind bone morphogenetic protein-2 (BMP- 2) was investigated. Compared to a collagen standard, the BMP-2 binding capacity of control, heat-treated, transglutaminase-treated and glutaraldehyde-treated kafirin microparticles were 7%, 18%, 34% and 22% higher, respectively, probably mainly due to the vacuoles within the microparticles creating greater binding surface area. The safety, biodegradability and effectiveness of kafirin microparticle film and kafirin microparticle film-BMP-2 system in inducing bone growth were determined by a subcutaneous bioassay using a rat model. Kafirin microparticle film and kafirin microparticle film-BMP-2 system was non-irritant to the animals, probably because kafirin is non-allergenic. The kafirin microparticle film implants showed signs of some degradation but a large proportion of these implants was still intact by Day 28 post implantation, probably because of the low susceptibility of kafirin to mammalian proteolytic enzymes. Kafirin microparticle film-BMP-2 system did not induce bone growth, probably mainly due to low BMP-2 dosage and short study duration. Modification of kafirin microparticles by wet heat or glutaraldehyde treatment both result in increased size of the microparticles with similar gross structure. However, it is apparent that with both treatments the proteins within the pre-formed kafirin microparticles undergo some form of further assisted-assembly through different mechanisms. It seems that heat-induced disulphide cross-linking reinforces a layer around the nanostructures, probably rich in γ- kafirin polypeptides, that stabilizes the structure of the nanostructures. In contrast, glutaraldehyde-treatment appears to destabilize this structure-stabilizing layer through formation of γ-kafirin polypeptide-glutaraldehyde covalent bonding. This probably offsets the balance of attractive and repulsive forces between the different kafirin subclasses within the nanostructures, thereby resulting in collapsed nanostructures and linear realignment. A deeper understanding of the mechanism of kafirin self-assembly will be important for further development of kafirin microstructures for different applications. / Thesis (PhD)--University of Pretoria, 2012. / Food Science / unrestricted

NK cells are a component of innate immunity system, which is derived from lymphoid progenitor. By a sophisticated receptor repertoire, which is expressed on their surface, they provide a surveillance against pathogenic, virus infected or tumour cells. Simultaneously they produce cytokines, thereby are involved in adaptive immune response. This work is focused on the study of structure of mice soluble mNkr-p1a isoform. Recently this short isoform was identified at the transcriptional level by a member of our laboratory and it is designated as isoform 2. The aim was to produce mNkr-p1a iso2 protein in the prokaryotic expression system and to perform its renaturation and purification in vitro. In the next phase of work, the obtained product was analyzed by the mass spectrometry methods. Recieved results made us think about that our protein is in unfolded state. This assumption was refuted by following biophysical methods, nuclear magnetic resonance, circular dichroism and dynamic light scattering measurement. Keywords: NK cells Receptor mNkr - p1a Short isoform mNkr - p1a iso2 Alternative splicing Protein biosynthesis Recombinant protein production Protein purification Mass spectrometry Disulfide bond Chemical cross-linking NMR, CD, DLS 5

Apoptosis signal-regulating kinase 1 (ASK1) is an apical kinase of the mitogen-activated protein kinase cascade. Its activity is triggered by various stress stimuli such as reactive oxygen species (ROS), cytokines, endoplasmic reticulum (ER) stress or osmotic stress resulting in the activation of p38 and c-Jun N-terminal kinase metabolic pathways and leading to inflammation or cell death. Dysregulation of ASK1 is linked to several pathologies such as neurodegenerative and cardiovascular diseases and cancer, which makes this protein a potential target of therapeutic intervention. The activity of ASK1 is regulated through protein-protein interactions with 14-3-3 proteins and thioredoxin1 being among the most important negative regulators and tumour necrosis factor receptor-associated factors being an example of positive regulators. Apart from that, ASK1 is also tightly regulated via oligomerization. Despite continual progress being made, the precise molecular mechanism of ASK1 regulation and the role of ASK1 oligomerization in this process still remains unclear to this day owing to the lack of structural data. Interaction of the N-terminal parts of two protomers of ASK1 dimer is one of the key steps in ASK1 activation. It was shown, that the isolated ASK1 catalytic domain (ASK1-CD) forms stable...

This dissertation is focused on developing cross-linking and mass spectrometry methodologies to study protein-protein interactions. Top-down cross-linking, in combination with mass spectrometry, provides advantages over bottom-up approaches, such as retaining posttranslational modification. Intermolecular cross-linking studies focus on defining protein complex topology and protein-protein interactions. We first developed the top-down MS approach to analyze intermolecular cross-linking in human hemoglobin. Both α-α and β-β intermolecular cross-linking were found and the cross-linking sites on the protein were identified, obtaining distance constraints between subunits of the human hemoglobin protein complex. This methodology would be a promising approach to characterize protein complexes and protein-protein interactions with high throughput and automation. This dissertation also focuses on development of cross-linking mass spectrometry to study synphilin-1 interactors and aggresome formation. Synphilin-1 is a protein that promotes the formation of protein aggregates and aggresome formation upon proteasome inhibition, and is implicated in Parkinson disease. Synphilin-1 contains several protein binding motifs. The biological functions of synphilin-1 and its role in aggresome formation and the pathogenesis of Parkinson disease remain to be elucidated. We utilized tandem affinity purification and label-free mass spectrometry to explore the patterns of cellular proteins associated with synphilin-1. We identified 57 synphilin-1 interacting proteins, and functional enrichment and pathway analysis showed that many of the associated proteins are involved in chromatin modulation, RNA and protein metabolism. Furthermore, we developed a proteomic strategy to identify synphilin-1 binary interacting partners as well as interacting domains using affinity purification followed by isotopically tagged cross-linking in combination with mass spectrometry. We found 24 newly discovered proteins that directly bind to synphilin-1. The proteins were mainly involved in RNA metabolism. The coiled-coil domain (CC), ankyrin-like repeat domain 2 (ANK2), and the protein aggregate promoting domain, appeared to the main regions that bound proteins. The functions of synphilin-1 interacting proteins, such as CK2, in aggresome formation were studied. The results show that CK2 is an important regulator of aggresome formation, but not through its kinase activities. Involvement of synphilin-1 in autophagy was also investigated. Knockdown of synphilin-1 shows that synphilin-1 impacts autophagy.

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The molecular weight of the vasoactive intestinal peptide (VIP) receptor was assessed in bovine aorta, and rat liver, lung, and brain by covalent cross-linking and sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The receptor in all four tissues was found to be a single polypeptide of approximate Mr 54,000, contradicting previous claims for substantial heterogeneity in the molecular weight of this receptor. Guanine nucleotides inhibit cross-linking of 125I-VIP to its receptor, and cross-linking with ethylene glycolbis(succinimidylsuccinate) provides further evidence for complex formation between VIP, its receptor and a guanine nucleotide-binding regulatory protein (G-protein). The precise mechanism of receptor-G-protein coupling may differ between the aorta and other tissues.

In dieser Arbeit wird ein neuer Ansatz beschrieben, elektroaktive Verbindungen auf mesoporösen Elektroden zu fixieren. Dies wurde durch die Bildung eines sich selbst organisierenden Monolayers auf der Innenseite eines mesoporösen Trägers (ITO, FTO, ATO, TiO2) erreicht. Dieser Layer wurde dann vernetzt und in Richtung des Porenzentrums weiter aufgebaut durch Substitutions- Kondensations- oder Elektropolymerisations- Reaktionen. Es wurde ein Vernetzungsverfahren entwickelt, welches die Herstellung stabiler elektrochromer Bilder mit verbessertem Kontrast und einer Haltbarkeit von mehr als 18 Monaten erlaubt. Es beinhaltet die Synthesen von molekularen Einheiten mit latent vorhandenen oder voll entwickelten elektrochromen Eigenschaften. Diese Einheiten waren 4,4´- Bipyridine, die entweder mit optionalen N-Alkyl, N-Benzyl oder N-Phenyl Gruppen mit nukleophilem oder elektrophilen Eigenschaften oder mit TiO2 Ankergruppen versehen waren. Die Kaskadenreaktion ergab Elektroden mit unterschiedlichen Oberflächenkonzentrationen und unterschiedlichen Pimerisationsgraden. Darüber hinaus gelang es, die Haltbarkeit und den Kontrast so weit zu steigern, dass sie kommerziellen Ansprüchen genügen. Die Optimierung der Gegenelektroden wurde durch ein ähnliches Verfahren unter Verwendung von Ferrocen- Derivaten erreicht. Die Ladungskapazitäten, die durch Multilayer Vernetzung auf ATO-Ferrocen Elektroden erhalten wurden, waren hervorragend mit Ausnahme der Tatsache dass ein schwach grüner Farbton, verursacht durch oxidiertes Ferrocen, vorhanden war. Schließlich wurde die Kaskadenreaktion auf B12 Derivate zur Herstellung von katalytisch aktiven TiO2 Elektroden angewandt. Die mit B12 modifizierten Elektroden zeigten verbesserte Stabilität, höhere turn over - Zahlen und größere turn over -Raten im Vergleich zu unvernetzten B12 modifizierten Elektroden.

京都大学 / 0048 / 新制・課程博士 / 博士(理学) / 甲第19958号 / 理博第4225号 / 新制||理||1607(附属図書館) / 33054 / 京都大学大学院理学研究科化学専攻 / (主査)教授 杉山 弘, 教授 三木 邦夫, 教授 秋山 芳展 / 学位規則第4条第1項該当 / Doctor of Science / Kyoto University / DGAM

Chemoreceptor dimers mediate bacterial chemotaxis through receptor arrays that form complexes with CheW and the kinase CheA. Both kinase activity and the rate of receptor methylation have been observed to change with receptor density in the signaling complexes of an assembled system. Receptor dimers play a structural and functional important role during the signaling process. The dimer is an established unit of a functional receptor array, but the exact packing arrangement of dimers in the signaling array is not known in detail. Two different models of the packing arrangement have been proposed, based on crystal structures of receptor cytoplasmic fragments: the trimer of dimers and hedgerow models. Here, we determine the importance of CF dimer organization on density dependence of kinase activity, receptor methylation, and we probe CF trimer organization by site-directed TMEA cross-linking. CF dimers were prepared by site-directed cysteine disulfide bond formation to test for a possible monomer-dimer equilibrium process in the density-dependence of kinase activity in the vesicle-assembled system. We found that density transition observed for CF4E is similar for both reduced and disulfide-linked CF, indicating that the CF is organized as dimers even at lower densities. CheR-catalyzed methylation experiment revealed that disulfide-linked CF dimers in solution are insufficient for efficient methylation, assembly of the CFs on a vesicle surface is required. CF trimers were trapped by the trifunctional crosslinker TMEA, but only with vesicle assembled CFs. TMEA crosslinking occurred between residues that were expected to form trimer, but also those that were not. The results provide evidence that CF behavior is highly dynamic in maleimide crosslinking reaction which conducted on vesicle assembled system.