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- All Subjects: NMR
- All Subjects: Bipyridine
- Genre: Doctoral Dissertation
- Creators: Marzke, Robert F
- Status: Published
Description
Spider dragline silk is well known for its outstanding mechanical properties - a combination of strength and extensibility that makes it one of the toughest materials known. Two proteins, major ampullate spidroin 1 (MaSp1) and 2 (MaSp2), comprise dragline silk fibers. There has been considerable focus placed on understanding the source of spider silk's unique mechanical properties by investigating the protein composition, molecular structure and dynamics. Chemical compositional heterogeneity of spider silk fiber is critical to understand as it provides important information for the interactions between MaSp1 and MaSp2. Here, the amino acid composition of dragline silk protein was precisely determined using a solution-state nuclear magnetic resonance (NMR) approach on hydrolyzed silk fibers. In a similar fashion, solution-state NMR was applied to probe the "13"C/"15"N incorporation in silk, which is essential to understand for designing particular solid-state NMR methods for silk structural characterization. Solid-state NMR was used to elucidate silk protein molecular dynamics and the supercontraction mechanism. A "2"H-"13"C heteronuclear correlation (HETCOR) solid-state NMR technique was developed to extract site-specific "2"H quadrupole patterns and spin-lattice relaxation rates for understanding backbone and side-chain dynamics. Using this technique, molecular dynamics were determined for a number of repetitive motifs in silk proteins - Ala residing nanocrystalline &beta-sheet; domains, 3"1"-helical regions, and, Gly-Pro-Gly-XX &beta-turn; motifs. The protein backbone and side-chain dynamics of silk fibers in both dry and wet states reveal the impact of water on motifs with different secondary structures. Spider venom is comprised of a diverse range of molecules including salts, small organics, acylpolyamines, peptides and proteins. Neurotoxins are an important family of peptides in spider venom and have been shown to target and modulate various ion channels. The neurotoxins are Cys-rich and share an inhibitor Cys knot (ICK) fold. Here, the molecular structure of one G. rosea tarantula neurotoxin, GsAF2, was determined by solution-state NMR. In addition, the interaction between neurotoxins and model lipid bilayers was probed with solid-state NMR and negative-staining (NS) transmission electron microscopy (TEM). It is shown that the neurotoxins influence lipid bilayer assembly and morphology with the formation of nanodiscs, worm-like micelles and small vesicles.
ContributorsShi, Xiangyan (Author) / Yarger, Jeffery L (Thesis advisor) / Holland, Gregory P (Thesis advisor) / Levitus, Marcia (Committee member) / Marzke, Robert F (Committee member) / Arizona State University (Publisher)
Created2014
Description
Increasing concentrations of carbon dioxide in the atmosphere will inevitably lead to long-term changes in climate that can have serious consequences. Controlling anthropogenic emission of carbon dioxide into the atmosphere, however, represents a significant technological challenge. Various chemical approaches have been suggested, perhaps the most promising of these is based on electrochemical trapping of carbon dioxide using pyridine and derivatives. Optimization of this process requires a detailed understanding of the mechanisms of the reactions of reduced pyridines with carbon dioxide, which are not currently well known. This thesis describes a detailed mechanistic study of the nucleophilic and Bronsted basic properties of the radical anion of bipyridine as a model pyridine derivative, formed by one-electron reduction, with particular emphasis on the reactions with carbon dioxide. A time-resolved spectroscopic method was used to characterize the key intermediates and determine the kinetics of the reactions of the radical anion and its protonated radical form. Using a pulsed nanosecond laser, the bipyridine radical anion could be generated in-situ in less than 100 ns, which allows fast reactions to be monitored in real time. The bipyridine radical anion was found to be a very powerful one-electron donor, Bronsted base and nucleophile. It reacts by addition to the C=O bonds of ketones with a bimolecular rate constant around 1* 107 M-1 s-1. These are among the fastest nucleophilic additions that have been reported in literature. Temperature dependence studies demonstrate very low activation energies and large Arrhenius pre-exponential parameters, consistent with very high reactivity. The kinetics of E2 elimination, where the radical anion acts as a base, and SN2 substitution, where the radical anion acts as a nucleophile, are also characterized by large bimolecular rate constants in the range ca. 106 - 107 M-1 s-1. The pKa of the bipyridine radical anion was measured using a kinetic method and analysis of the data using a Marcus theory model for proton transfer. The bipyridine radical anion is found to have a pKa of 40±5 in DMSO. The reorganization energy for the proton transfer reaction was found to be 70±5 kJ/mol. The bipyridine radical anion was found to react very rapidly with carbon dioxide, with a bimolecular rate constant of 1* 108 M-1 s-1 and a small activation energy, whereas the protonated radical reacted with carbon dioxide with a rate constant that was too small to measure. The kinetic and thermodynamic data obtained in this work can be used to understand the mechanisms of the reactions of pyridines with carbon dioxide under reducing conditions.
ContributorsRanjan, Rajeev (Author) / Gould, Ian R (Thesis advisor) / Buttry, Daniel A (Thesis advisor) / Yarger, Jeff (Committee member) / Seo, Dong-Kyun (Committee member) / Arizona State University (Publisher)
Created2015
Description
Proton and fluorine diffusivity and ionic conductivity of 2-fluoropyridinium triflate (2-FPTf) and proton and fluorine diffusivity, ionic conductivity, and viscosity of trifluoromethanesulfonic acid (TFMSA) monohydrate have been measured over a wide range of temperatures. Diffusivities were measured using the pulsed-gradient spin-echo (PGSE) technique on a 300 MHz NMR spectrometer. Conductivities were measured using electrochemical impedance spectroscopy (EIS) on standard equipment and viscosities were determined using a Cannon-Ubbelohde viscometer. For 2-FPTF, the diffusivity of mobile protons increased from 1.84+/-0.06 x 10(-11) m2/s at 55 degC to 1.64+/-0.05 x 10(-10) m2/s at 115 degC while the diffusivity of 2-fluoropyridine fluorines increased from 2.22+/-0.07 x 10(-11) m2/s at 70 degC to 9.40+/-0.28 x 10(-11) m2/s at 115 degC. For TFMSA monohydrate, the diffusivity of protons increased from 7.67+/-0.23 x 10(-11) m2/s at 40 degC to 3.92+/-0.12 x 10(-10) m2/s at 110 degC while the diffusivity of fluorines increased from 4.63+/-0.14 x 10(-11) m2/s at 40 degC to 2.79+/-0.08 x 10(-10) m2/s at 110 degC, protons diffusing approximately 1.5 times faster than fluorines over the entire temperature range. NMR spectra indicate that proton diffusion occurs via direct hopping from TFMSA molecule to molecule. The conductivity of 2-FPTf varied from 0.85+/-0.03 mS/cm to 35.9+/-1.08 mS/cm between 25 and 110 degC. The conductivity of TFMSA monohydrate varied from 6.60+/-0.2 mS/cm to 84.6+/-2.5 mS/cm between 23 and 139 degC and its viscosity varied from 27.5+/-1.4 mPa.s to 4.38+/-0.22 mPa.s between 49 and 121.5 degC, in good agreement with literature values. Temperature dependences of the measured properties showed Arrhenius behavior with activation energies for proton diffusion, fluorine diffusion and ionic conduction for 2-FPTf above the melting point of 16.9+/-0.8 kJ/mol, 48.0+/-2.4 kJ/mol and 27.8+/-1.4 kJ/mol respectively. Activation energies for proton diffusion, fluorine diffusion, ionic conduction and viscosity for TFMSA monohydrate were 23.4+/-1.2 kJ/mol, 26.0+/-1.3 kJ/mol, 22.1+/-1.1 kJ/mol, and 26.9+/-1.3 kJ/mol respectively. The degree of dissociation of the charged species, calculated using the Nernst-Einstein relation, varied from 13 to 24% for 2-FPTf and from 25 to 29% for TFMSA monohydrate over the temperature range.
ContributorsAbdullah, Mohammed Wahed (Author) / Marzke, Robert F (Thesis advisor) / Gervasio, Dominic (Committee member) / Chamberlin, Ralph (Committee member) / Alarcon, Ricardo (Committee member) / Arizona State University (Publisher)
Created2015