Chemistry Commons^™

Enzyme, Cosolvent, And Substrate Interactions In Ple Hydrolysis Reactions And Evaluation Of The Stability Of An Unnatural Glutathione Analogue, Maureen Elizabeth Smith

Dissertations

Prochiral diester malonates have been hydrolyzed in the presence of Pig Liver Esterase (PLE). Several of the diesters produced the respective half-ester in moderate to high enantioselectivity. A series of cosolvent assays were performed to evaluate the ability of the cosolvent to influence the enantioselective outcome of the hydrolysis reactions. Ethanol produced the largest changes in enantioselectivity of all solvents evaluated. The isoenzymes of PLE were also evaluated and provided very different enantioselective outcomes than that of crude PLE. A series of NMR titrations was performed to explore the interactions between the substrates and ethanol cosolvents.

Improvements to our previously …

Spectroscopy And Gas-Phase Binding Of Modified Desferrioxamine B Indicator Displacement-Based Sensors, William Scott Jones

Dissertations

A coupling reaction has been used to successfully synthesize two novel probes utilizing coumarin derivatives as fluorophores. The structure, spectroscopy, and thermodynamics of these probes were characterized and studied. These probes, along with a classical probe using a N-methyl-anthranilate fluorophore, are used to take advantage of the ability of siderophores to coordinate Fe³⁺ ions which is coupled with the attractive phosphorescence properties of lanthanide ions. The use of lanthanide metals to create an indicator displacement assays is a novel application of these probes for the detection of Fe³⁺ ions. The use of Tb³⁺ ions as the indicator …

Selective Indicators For Optical Determination Of Disease Biomarkers, Lovemore Hakuna

Dissertations and Theses

The most abundant biological thiols, homocysteine (Hcy), cysteine (Cys) and glutathione (GSH) have been the subject of intense research due to their association with a wide range of diseases. They play a key role in maintaining the redox status of biological systems. Selective detection methods for these thiols are challenging due to their similar structures and properties. Current commercially available detection methods use separations, fragile and expensive enzymatic or immunogenic materials and complex instrumentation. This has led to a global effort towards developing simple and inexpensive optical probes and indicators selective for specific biological thiols.

Highly selective chemical probes and …

Identification And The Significance Of Selective Proteins In Bile And Plasma Of Normal And Health-Compromised Chickens, Balamurugan Packialakshmi

Graduate Theses and Dissertations

During the last 50 years, animal breeding programs in commercial poultry have made significant progress in the bodyweight gain of broilers but led to several metabolic and skeletal disorders. Lameness associated with proximal femur known as femoral head separation (FHS) or femoral head necrosis (FHN) is one of the major metabolic disorders in poultry industry. In order to select for healthy chickens, markers that can distinguish between healthy and affected birds are required. Biomarkers from blood represent an ideal and rich source of markers which can be obtained using minimally invasive methods. The biomarkers were explored in an experimental model …

Designing Magnetically Responsive Ultrafiltration Membranes, Robert William Dong

Graduate Theses and Dissertations

Ultrafiltration (UF) membranes developed out of a need for protein separation processes. Currently, they are used in a variety of industries ranging from food manufacturing to pharmaceuticals for two main purposes: concentration, separation, and buffer exchange. UF membrane processes in product streams undergo frequent use and like all membrane processes experience a gradual decline in performance due to fouling phenomena both irreversible and reversible. Ultimately, performance declines to a point where the UF membrane needs to be replaced. Frequent replacement of UF membranes is detrimental to major industries that require high product throughput using UF processes. Thus, it is important …

Development And Application Of Combined Quantum Mechanical And Molecular Mechanical Methods, Rui Lai

Department of Chemistry: Dissertations, Theses, and Student Research

Compromising of computational cost and accuracy, combined quantum mechanical and molecular mechanical (QM/MM) methods are practical methods for studying large molecular systems. The use of induced dipole polarizable force fields can significantly improve the accuracy of MM and QM/MM methods. However, induced dipole models tend to overestimate the polarization energy at short interaction distances. Damping functions can be applied to reduce the over polarization. MM-MM damping schemes have been developed to correct the overestimated polarization between MM atoms; QM-MM damping scheme has not been developed. In this thesis, a QM-MM damping scheme is developed for the damping of the MM …

Distinct Conformational Behaviors Of Four Mammalian Dual-Flavin Reductases (Cytochrome P450 Reductase, Methionine Synthase Reductase, Neuronal Nitric Oxide Synthase, Endothelial Nitric Oxide Synthase) Determine Their Unique Catalytic Profiles, Mohammad Mahfuzul Haque, Mekki Bayachou, Jesus Tejero, Claire T. Kenney, Naw M. Pearl, Sang-Choul Im, Lucy Waskell, Dennis J. Stuehr

Chemistry Faculty Publications

Multidomain enzymes often rely on large conformational motions to function. However, the conformational setpoints, rates of domain motions and relationships between these parameters and catalytic activity are not well understood. To address this, we determined and compared the conformational setpoints and the rates of conformational switching between closed unreactive and open reactive states in four mammalian diflavin NADPH oxidoreductases that catalyze important biological electron transfer reactions: cytochrome P450 reductase, methionine synthase reductase and endothelial and neuronal nitric oxide synthase. We used stopped-flow spectroscopy, single turnover methods and a kinetic model that relates electron flux through each enzyme to its conformational …

Magnetic Nickel Nanoparticles: Synthesis, Environmental Lmplications And Potential Role As Drug Carriers, Setare Tahmasebi Nick

Dissertations

The design and synthesis of well-defined magnetic particles with nanoscale dimensions is opening new avenues in understanding their fundamental chemical and physical properties. Our work describes a novel facile procedure for the synthesis of homogenous isotropic and anisotropic magnetic nickel nanoparticles. These nanoparticles were produced using a wet-chemical process and characterized by transmission electron microscopy (TEM), high-resolution transmission electron microscopy (HRTEM), selected-area electron diffraction (SAED), powder x-ray diffraction (XRD), energy dispersive spectroscopy (EDS) and thermogravimetric analysis (TGA). Magnetic measurements were acquired using a superconducting quantum interference device (SQUID) magnetometer. While there is significant interest in using magnetic nanoparticles for biological …

Synthesis And Characterization Of Complex Molecular Assemblies On Surfaces, Nitesh Madaan

Theses and Dissertations

The research presented in this dissertation is focused on the construction of complex molecular structures on planar gold and silicon dioxide surfaces using a variety of surface modification techniques, along with thorough surface characterization at each modification step. The dissertation is structured into six separate chapters. In Chapter 1, an introduction to the importance and implications of molecular level surface modification, commonly employed surface modification methods, and available surface characterization techniques is presented. Chapter 2 shows applications of novel methodologies for the functionalization of gold surfaces using alkane dithiol self-assembled monolayers and thiol-ene click chemistry. The resulting functionalized gold substrates …

Chaperone-Mediated Folding And Assembly Of Β-Propeller Proteins Into Cellular Signaling Complexes, Rebecca L. Plimpton

Theses and Dissertations

G protein signaling depends on the ability of the individual subunits of the G protein heterotrimer to assemble into a functional complex. Formation of the G protein βγ (Gβγ) dimer is particularly challenging because it is an obligate dimer in which the individual subunits are unstable on their own. Recent studies have revealed an intricate chaperone system that brings the Gβ and Gγ subunits together. This system includes the cytosolic chaperonin containing TCP-1 (CCT) and a co-chaperone phosducin-like protein 1 (PhLP1). Two key intermediates in the Gβγ assembly process, the Gβ-CCT and the PhLP1-Gβ-CCT complexes, were isolated and their structures …

Probing The Unfolding And The Stability Of The Last Four Metal Binding Domains Of Wilson Disease Protein Using Circular Dichroism And Novel Spectroscopic Techniques, Ibtesam Yaseen Alja’Afreh

Dissertations

Wilson disease protein is a copper-transporting P_1B type ATPase. It has large N-terminal copper binding domain which is composed of six homologous sub-domains. Each of these six domains is ~72 residues and connected to one another by linking regions of various lengths. They all possess similar ferrodoxin fold, and metal-binding motif, MXCXXC.

The need of having six metal binding domains and the manner in which they are communicating with each other is not well understood. To better understand how the last four metal binding domains function, I pursued a detailed biophysical characterization of these domains. Using molecular biology I …

Ultrafast Interfacial Electron Transfer Across Molecule-Tio2 Nanocomposites: Towards Solar Cells And Two Photon Absorption, Edwin Mghanga

Dissertations

Interfacial charge transfer (ICT) across the molecule-TiO2 nanoparticle interface has gained enormous research attention for applications in dye sensitized solar cells (DSSC), photo-catalysis, water splitting and nonlinear optics. DSSCs are promising clean alternative energy sources. However, current DSSCs suffer from lower efficiencies and higher cost. Better understanding of the ICT processes in DSSCs can help solve these problems. We have used two strategies to understand ICT in the context of DSSCs. Firstly, we used a computationally validated anchor group, acetylacetonate (acac) to bind molecules to the semiconductor surface and facilitate charge separation. Secondly, we used natural dye sensitizers, …

Human Whole-Blood (1)H2o Longitudinal Relaxation With Normal And High-Relaxivity Contrast Reagents: Influence Of Trans-Cell-Membrane Water Exchange, Gregory J. Wilson, Mark Woods, Charles S. Springer Jr., Sarah Bastawrous, Puneet Bhargava, Jeffrey H. Maki

Chemistry Faculty Publications and Presentations

PURPOSE: Accurate characterization of contrast reagent (CR) longitudinal relaxivity in whole blood is required to predict arterial signal intensity in contrast-enhanced MR angiography (CE-MRA). This study measured the longitudinal relaxation rate constants (R₁ ) over a concentration range for non-protein-binding and protein-binding CRs in ex vivo whole blood and plasma at 1.5 and 3.0 Tesla (T) under physiologic arterial conditions.

METHODS: Relaxivities of gadoteridol, gadobutrol, gadobenate, and gadofosveset were measured for [CR] from 0 to 18 mM [mmol(CR)/L(blood)]: the latter being the upper limit of what may be expected in CE-MRA.

RESULTS: In plasma, the ¹H2 O R …

Dispersion Of Em Waves, Ronald Lovett

Topics in Quantum Mechanics

No abstract provided.

Tuning Responsiveness Of Polypeptide Based Block Copolymers For Drug Delivery, Ashley J. Johnson

Dissertations

The goal of this dissertation was to tune the pH response and self-assembled morphologies of amphiphilic polypeptide block copolymers for use as drug delivery vehicles. Poly(L-lysine) and poly(L-glutamtic acid) are responsive, ionizable polypeptides that undergo secondary structure transitions, from α-helix to random coil, whereby the change in conformation of the peptide chain results in changes to the global morphology of a self-assembled system. The main focus of this work was to understand how changes in the polymer composition and the local environment can lead to control over the behavior of the overall system. First, the responsive behavior of poly(L-lysine) block …

Continuous Polymer Reactor Design, David Sujay Kingsley

Dissertations

Twin screw extruders can be used as continuous polymer reactors to process polymers, which are conventionally made through batch reactors. Batch processes have certain undesirable qualities such as improper mixing and the inability to precisely control the reaction, which leads to variation between batches and potential exotherms. The work presented in this dissertation investigates the use of continuous polymer reactor designs to efficiently process renewable sourced thermoplastic polyurethanes (TPU), and prepreg epoxy matrix prepolymers.

The overall goal of this research is to highlight the modularity of twin screw extruders as continuous polymer reactors to synthesize the relevant polymers. Chapter I …

Investigation Of Glassy State Molecular Motions In Thermoset Polymers, Jianwei Tu

Dissertations

This dissertation presents the investigation of the glassy state molecular motions in isomeric thermoset epoxies by means of solid-state deuterium (²H) NMR spectroscopy technique. The network structure of crosslinked epoxies was altered through monomer isomerism; specifically, diglycidyl ether of bisphenol A (DGEBA) was cured with isomeric amine curatives, i.e., the meta-substituted diaminodiphenylsulfone (33DDS) and para-substituted diaminodiphenylsulfone (44DDS). The use of structural isomerism provided a path way for altering macroscopic material properties while maintaining identical chemical composition within the crosslinked networks.

The effects of structural isomerism on the glassy state molecular motions were studied using solid-state ²H …

Misalignments: Challenges In Cultivating Science Faculty With Education Specialties In Your Department, Seth D. Bush, Nancy Pelaez, James A. Rudd Ii, Michael T. Stevens, Kimberly D. Tanner, Kathy S. Williams

PIBERG Publications

Science Faculty with Education Specialties (SFES) are increasingly being hired across the United States. However, little is known about the motivations for SFES hiring or the potential or actual impact of SFES. In the context of a recent national survey of US SFES, we investigated SFES perceptions about these issues. Strikingly, perceptions about reasons for hiring SFES were poorly aligned with perceptions about potential and actual contributions reported by SFES themselves, and the advice they extended to beginning SFES was varied. While preparation of future teachers and departmental teaching needs were common reasons offered for SFES hiring, the potential and …

Sign Me Up! Determining Motivation For High School Chemistry Students Enrolling In A Second Year Chemistry Course, Nilda N. Camarena

Theses and Dissertations - UTB/UTPA

A sample of 108 Pre-AP Chemistry students in Texas participated in a study to determine motivational factors for enrolling in AP Chemistry and University Chemistry. The factors measured were academic attitude, perceptions of chemistry, confidence level in chemistry, and expectations/experiences in the chemistry class. Students completed two questionnaires, one at the beginning of the year and one at the end. Four high school campuses from two school districts in Texas participated. Two campuses were traditional high schools and two were smaller magnet schools. The results from this study are able to confirm that there are definite correlations between academic attitudes, …

Physicochemical Characterization Of Novel 1,1 0-Phenanthrolines, Dominic Millheim

Masters Theses

1,10-Phenanthroline is a well-known and often-used ligand with a variety of interesting properties and applications to both organic and inorganic chemistry. Interest in novel 1,10-phenanthrolines substituted at the 5- and 6- position has grown recently due to their interesting fluorometric and spectroscopic properties. They have been evaluated recently for applications including chemical sensors, chemical indicators, pharmacological targets and bioactive reagents.

1,10-Phenanthroline, an epoxidated synthetic intermediate, and a novel 5,6- disubstituted aminoalcohol derivative were studied to determine the degree of influence that iterative physical and chemical transformations have on the donor properties of the N-C-C-N pocket. Multiple analytical techniques including potentiometry …

Biomarker Discovery Of Liver Diseases Using Mass Spectrometry-Based Metabolomics., Xue Shi

Electronic Theses and Dissertations

Metabolomics has emerged as one of the latest of the "-omics" disciplines that can detect metabolite biomarkers in biological samples. The diverse characteristics of metabolites make the analytical platform challenging in metabolomics. Two bioanalytical platforms were developed in this study to investigate metabolite abundance changes under different biological conditions. We first developed a bioanalytical platform that coupled linear trap quadruple - Fourier transform ion cyclotron mass spectrometer (LTQ-FTICR MS) with direct infusion chip-based nano-electrospray ionization (DI-nESI) and applied it to study polychlorinated biphenyls (PCB) effects on non-alcoholic fatty liver disease (NAFLD). We also employed this platform in conjunction with in …

Method Development For The Analysis Of Aluminum, Calcium, Magnesium And Iron In Sedimentary Rocks, Zainab Ali Alhawdar

Electronic Theses & Dissertations

The focus of this study involved the analysis of sedimentary rocks by using atomic absorption spectroscopy. There are three classifications of sedimentary rocks: organic, formed as a result of vital activity of organisms such as coal; non-organic (chemical), formed in the process of evaporation of concentrated mineral solution such as limestone, dolomite, gypsum, salt and chert; and clastic (fragmental), formed from pre-existing rocks as a result of their fragmentation followed by further hardening and cementing such as conglomerate, breccia, sandstone, siltstone and shale. There are various analytical methods for analyzing sedimentary rocks, all of which require dissolving and digestion of …

Empirical Demonstration Of Environmental Sensing In Catalytic Rna: Evolution Of Interpretive Behavior At The Origins Of Life, Niles Lehman, Tess Bernhard, Brian C. Larson, Andrew J.N. Robinson, Christopher C.B. Southgate

Chemistry Faculty Publications and Presentations

Background: The origins of life on the Earth required chemical entities to interact with their environments in ways that could respond to natural selection. The concept of interpretation, where biotic entities use signs in their environment as proxy for the existence of other items of selective value in their environment, has been proposed on theoretical grounds to be relevant to the origins and early evolution of life. However this concept has not been demonstrated empirically.

Results: Here, we present data that certain catalytic RNA sequences have properties that would enable interpretation of divalent cation levels in their environment. …

Experimental Evidence For Colloid-Facilitated Transport Of Plutonium, Hilary Emerson

All Dissertations

Colloid-facilitated transport of the actinides has been observed previously in the field on the kilometer scale. The objective of this work is to investigate the mechanisms of colloid-facilitated transport with controlled settings and conditions. The experimental work in this dissertation investigates transport of a ternary complex with iron oxide colloids, organic ligands and actinides in the presence of quartz or a natural sandy soil as well as simplified systems building up to the ternary complexes. The first three papers investigate the following: (1) unsaturated transport of iron oxide colloids in a natural sandy soil lysimeter with and without natural organic …

Protein Expression, Characterization And Activity Comparisons Of Wild Type And Mutant Dusp5 Proteins, Jaladhi Nayak, Adam J. Gastonguay, Marat R. Talipov, Padmanabhan Vakeel, Elise A. Span, Kelsey S. Kalous, Raman G. Kutty, David R. Jensen, Phani Raj Pokkuluri, Daniel S. Sem, Rajendra Rathore, Ramani Ramchandran

Chemistry Faculty Research and Publications

Background

The mitogen-activated protein kinases (MAPKs) pathway is critical for cellular signaling, and proteins such as phosphatases that regulate this pathway are important for normal tissue development. Based on our previous work on dual specificity phosphatase-5 (DUSP5), and its role in embryonic vascular development and disease, we hypothesized that mutations in DUSP5 will affect its function.

Results

In this study, we tested this hypothesis by generating full-length glutathione-S-transferase-tagged DUSP5 and serine 147 proline mutant (S147P) proteins from bacteria. Light scattering analysis, circular dichroism, enzymatic assays and molecular modeling approaches have been performed to extensively characterize the protein form and function. …

Toward Understanding The Thermodynamics And Mechanisms Of Actinide Sorption Reactions, Shanna Estes

All Dissertations

The environmental fate of actinides is greatly influenced by interfacial reactions, including sorption onto solid surfaces. Because changes in the primary hydration sphere of the actinide are expected to greatly influence the thermodynamics (i.e., reaction enthalpy and entropy) of these reactions, examining actinide sorption thermodynamics may provide insight into actinide sorption mechanisms. Additionally, examining actinide sorption thermodynamics may enhance the ability to model or predict these reactions in environmental or engineered systems where variable or elevated temperatures are expected. However, few researchers have studied actinide sorption thermodynamics. Therefore, this research examined the thermodynamics of Eu(III) (a trivalent actinide analog), Th(IV), …

Neutron Study Of Structure And Dynamics Of Rigid Polymers, Naresh Osti

All Dissertations

The structure and the dynamics in two different classes of rigid polymers; ionomers and rigid luminescent polymers, have been investigated predominantly by neutron techniques. Rigidity of the backbones of both polymers affects their properties. For ionomers, it affects transport pathways, therefore, their applications for energy and separation membranes. In luminescent polymers, it determines the conformations of the chains and their electro-optical response. One group of the polymers consists of rigid hydrophobic para-phenylene backbone decorated with pendant phenyl side chains functionalized with sulfonic acid (SPP). The other family of polymers consists of poly para-phenyleneethynylene (PPE) backbone that becomes conjugated upon conformational …

Surface Modifications Of Capillary-Channeled Polymer (C-Cp) Fiber Stationary Phases: Improving The Efficiency Of Highly Selective Analyte Separations, Abby Schadock-Hewitt

All Dissertations

High performance liquid chromatography (HPLC) is a fundamental methodology for the characterization and purification of macromolecules. Since its development in the 1970's, HPLC has significantly advanced its instrumentation and column technology to become a powerful analytical technique. A considerable amount of research focuses on advancements to the stationary phase, or solid support, on which molecules interact and separate. To overcome limitations of other phases that lead to poor mass transfer, slow speeds, and low efficiency, nonporous and superficially porous phases have been developed. Specifically, fiber based polymer stationary phases show great promise as stationary phases for protein separations. The Marcus …

Fabrication, Characterization, Optimization And Application Development Of Novel Thin-Layer Chromatography Plates, Supriya Singh Kanyal

Theses and Dissertations

This dissertation describes advances in the microfabrication of thin layer chromatography (TLC) plates. These plates are prepared by the patterning of carbon nanotube (CNT) forests on substrates, followed by their infiltration with an inorganic material. This document is divided into ten sections or chapters. Chapter 1 reviews the basics of conventional TLC technology. This technology has not changed substantially in decades. This chapter also mentions some of the downsides of the conventional approach, which include unwanted interactions of the binder in the plates with the analytes, relatively slow development times, and only moderately high efficiencies. Chapter 2 focuses primarily on …

Computational And Experimental Investigation Into Yield Behavior And Cure Rate Dependence Of Thermoset Polymers, Christopher Harold Childers

Dissertations

This dissertation is broken down into two primary sections: firstly, the development and improvement of molecular dynamics simulations of thermoset matrix polymers including their use in understanding molecular response to applied strain deformation and secondly, the discernment of a cure heating ramp rate dependence of the final molecular and macro-molecular properties of thermoset matrix polymer.

The molecular dynamics section will discuss the development of molecular dynamics simulations of thermoset epoxy/amine matrix polymers, and the implementation of this work to determine the underlying molecular level events that cause thermoset matrix polymer yield. It will report a novel method for the determination …