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Abstract: We report a chemo-biocatalytic cascade for the synthesis of substituted pyrroles, driven by the action of an irreversible, thermostable, pyridoxal 5′-phosphate (PLP)-dependent, C–C bond-forming biocatalyst (ThAOS). The ThAOS catalyzes the Claisen-like condensation between various amino acids and acyl-CoA substrates to generate a range of α-aminoketones. These products are reacted with β-keto esters in an irreversible Knorr pyrrole reaction. The determination of the 1.6 Å resolution crystal structure of the PLP-bound form of ThAOS lays the foundation for future engineering and directed evolution. This report establishes the AOS family as useful and versatile C–C bond-forming biocatalysts.

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Abstract: A histidine-based amphiphilic peptide (P) has been found to form an injectable transparent hydrogel in phosphate buffer solution over a pH range from 7.0 to 8.5 with an inherent antibacterial property. It also formed a hydrogel in water at pH = 6.7. The peptide self-assembles into a nanofibrillar network structure which is characterized by high-resolution transmission electron microscopy, field-emission scanning electron microscopy, atomic force microscopy, small-angle X-ray scattering, Fourier-transform infrared spectroscopy, and wide-angle powder X-ray diffraction. The hydrogel exhibits efficient antibacterial activity against both Gram-positive bacteria Staphylococcus aureus (S. aureus) and Gram-negative bacteria Escherichia coli (E. coli). The minimum inhibitory concentration of the hydrogel ranges from 20 to 100 μg/mL. The hydrogel is capable of encapsulation of the drugs naproxen (a non-steroidal anti-inflammatory drug), amoxicillin (an antibiotic), and doxorubicin, (an anticancer drug), but, selectively and sustainably, the gel releases naproxen, 84% being released in 84 h and amoxicillin was released more or less in same manner with that of the naproxen. The hydrogel is biocompatible with HEK 293T cells as well as NIH (mouse fibroblast cell line) cells and thus has potential as a potent antibacterial and drug releasing agent. Another remarkable feature of this hydrogel is its magnification property like a convex lens.

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Abstract: Electrocyclic reactions are characterized by the concerted formation and cleavage of both σ and π bonds through a cyclic structure. This structure is known as a pericyclic transition state for thermal reactions and a pericyclic minimum in the excited state for photochemical reactions. However, the structure of the pericyclic geometry has yet to be observed experimentally. We use a combination of ultrafast electron diffraction and excited state wavepacket simulations to image structural dynamics through the pericyclic minimum of a photochemical electrocyclic ring-opening reaction in the molecule α-terpinene. The structural motion into the pericyclic minimum is dominated by rehybridization of two carbon atoms, which is required for the transformation from two to three conjugated π bonds. The σ bond dissociation largely happens after internal conversion from the pericyclic minimum to the electronic ground state. These findings may be transferrable to electrocyclic reactions in general.

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Abstract: Facultative anaerobic bacteria such as Escherichia coli have two α2β2 heterotetrameric trifunctional enzymes (TFE), catalyzing the last three steps of the β-oxidation cycle: soluble aerobic TFE (EcTFE) and membrane-associated anaerobic TFE (anEcTFE), closely related to the human mitochondrial TFE (HsTFE). The cryo-EM structure of anEcTFE and crystal structures of anEcTFE-α show that the overall assembly of anEcTFE and HsTFE is similar. However, their membrane-binding properties differ considerably. The shorter A5-H7 and H8 regions of anEcTFE-α result in weaker α-β as well as α-membrane interactions, respectively. The protruding H-H region of anEcTFE-β is therefore more critical for membrane-association. Mutational studies also show that this region is important for the stability of the anEcTFE-β dimer and anEcTFE heterotetramer. The fatty acyl tail binding tunnel of the anEcTFE-α hydratase domain, as in HsTFE-α, is wider than in EcTFE-α, accommodating longer fatty acyl tails, in good agreement with their respective substrate specificities.

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Abstract: In this thesis, we report the ability to fabricate hydrogels using low molecular weight gelators (LMWGs) and the subsequent characterisation of their mechanical properties over a variety of different length scales. These materials have been investigated due to their potential use in a wide range of biomedical applications including drug delivery, tissue engineering, cell culture and wound healing. We describe the localised gelation of LMWGs on electrode surfaces via electrochemically generated pH gradients. The electrofabrication of hydrogels on electrode surfaces has shown great potential in the field of biomedicine, with applications ranging from antimicrobial wound dressings, tissue engineering scaffolds and biomimetic materials. First, we describe the largest reported di- and tri-peptide-based hydrogels on electrode surfaces via the electrochemical oxidation of hydroquinone. Expanding upon previous work which focuses on the fabrication of hydrogels on the nanometre to millimetre scale, we deposit hydrogels around 3 cm3 in size. Furthermore, we demonstrate that there is an upper limit to how large the hydrogels can grow which is determined by the size of the pH gradient from the electrode surface. To grow hydrogels of this size, much longer deposition times of two to five hours are required than in previous reports. When the gelator/hydroquinone solution is left exposed to the open atmosphere for this amount of time, the hydroquinone in solution oxidises to benzoquinone/quinhydrone before it can be consumed electrochemically. This inhibits the electrochemical reaction and reduces gelation efficiency. To prevent this, we build a system that can perform the fabrication process under an inert nitrogen atmosphere. Using this system, we show how the choice of gelator affects the mechanical properties of the hydrogel and the resulting material phenomena that cause these changes. As well as this, we show how this approach can be used to grow multi-layered hydrogels, with each layer presenting different chemical and mechanical properties. Secondly, we report the first known example of electrodeposition for a LMWG molecule using an electrochemically generated basic pH gradient at electrode surfaces. This approach has previously been used to fabricate hydrogels of the biopolymer chitosan using the galvanostatic reduction of hydrogen peroxide. During the electrochemical reduction of hydrogen peroxide, hydroxide ions are produced. As a result, a basic pH zone is generated at the electrode, triggering solutions of chitosan to form immobilised hydrogels on the electrode surface. Using this approach, we show how electrodeposition at high pH can be applied to our LMWG system. We then show that we can electrochemically form hydrogels at high pH, with the gel properties being greatly improved by the addition and increased concentration of hydrogen peroxide. Following from this, we then show the simultaneous formation of two low molecular weight hydrogels at acidic and basic pH extremes. To achieve this, we couple the electrochemical reduction of hydrogen peroxide and the electrochemical oxidation of hydroquinone described in the previous chapter. Finally, we report the electrodeposition of five carbazole-protected amino acid hydrogels on electrode surfaces via the electrochemical oxidation of hydroquinone. As well as this, we report the full to partial electropolymerisation of the pre-assembled hydrogels in perchloric acid. For the less bulky carbazole-protected amino acids, the full collapse of the hydrogel to form electrochromic polymers on the electrode surface is achieved. However, for the bulkier gelators, little to no evidence of polymerisation occurs. We believe this is due to the bulky side chain on the gelator backbone preventing the molecular reorganization required for polymerization to occur.