Physical Sciences and Mathematics Commons^™

Structure Of Polc Reveals Unique Dna Binding And Fidelity Determinants, Ronald J. Evans, Douglas R. Davies, James M. Bullard, Jeffrey Christensen, Louis S. Green, Joseph W. Guiles, Janice D. Pata, Wendy K. Ribble, Nebojsa Janjic, Thale C. Jarvis

Chemistry Faculty Publications and Presentations

PolC is the polymerase responsible for genome duplication in many Gram-positive bacteria and represents an attractive target for antibacterial development. We have determined the 2.4-Å resolution crystal structure of Geobacillus kaustophilus PolC in a ternary complex with DNA and dGTP. The structure reveals nascent base pair interactions that lead to highly accurate nucleotide incorporation. A unique β-strand motif in the PolC thumb domain contacts the minor groove, allowing replication errors to be sensed up to 8 nt upstream of the active site. PolC exhibits the potential for large-scale conformational flexibility, which could encompass the catalytic residues. The structure suggests a …

Laser-Induced Photon-Branched Chain Reaction In A Chemically-Active Gas-Dispersed Medium, Thomas George, Renat Letfullin, Galen Duree

Chemistry & Biochemistry Faculty Works

A promising avenue in the development of high-energy pulsed chemical HF/DF lasers and amplifiers is the utilization of a photon-branched chain reaction initiated in a two-phase active medium, that is, a medium containing a laser working gas and ultradispersed passivated metal particles. These particles are evaporated under the action of IR laser radiation which results in the appearance of free atoms, their diffusion into the gas, and the development of a photon-branching chain process, which involves photons as both reactants and products. The key obstacle here is the formation of a relatively large volume (in excess of 10^3 cm^3) of …

Laser-Induced Photon-Branched Chain Reaction In A Chemically-Active Gas-Dispersed Medium, Thomas F. George, Renat R. Letfullin, Galen C. Duree

Thomas George

Structure And Dynamics Of Metalloproteins In Live Cells, Jeremy D. Cook, James E. Penner-Hahn, Timothy L. Stemmler

Biochemistry and Molecular Biology Faculty Publications

X-ray absorption spectroscopy (XAS) has emerged as one of the premier tools for investigating the structure and dynamic properties of metals in cells and in metal containing biomolecules. Utilizing the high flux and broad energy range of X-rays supplied by synchrotron light sources, one can selectively excite core electronic transitions in each metal. Spectroscopic signals from these electronic transitions can be used to dissect the chemical architecture of metals in cells, in cellular components and in biomolecules at varying degrees of structural resolution. With the development of ever-brighter X-ray sources, X-ray methods have grown into applications that can be utilized …

Towards The Total Synthesis Of Thioviridamide: Thiyl Radical Approach To The Beta-Thioenamide Linkage Formation, Jung-Hoon Kang

Theses and Dissertations

We developed an approach to the β-thioenamide linkage contained in the S-(2-aminovinyl)cysteine (avCys) residue of thioviridamide.1,2 Kinetic and thermodynamic control of radical additions of thiols to ynamides were studied for the formation of β-thioenamide linkage. Thiyl radicals are electrophilic and ynamides are electron-rich alkynes. This complementary polarity of the radical and acceptor increases the likelihood of a successful radical addition reaction. Because little is known about these types of compounds (β-thioenamides), we were unsure what kinds of yields and stereoselectivities (cis vs. trans) to expect. The adduct stability is another issue to consider. Fortunately, under typical radical addition conditions, the …

Silole Based Acetylenes As Advanced Π-Conjugated Systems For Optoelectronic Applications, Brian Pagenkopf, Mahmoud M. Abd Rabo Moustafa

Chemistry Publications

Nonlinear optical (NLO) and electro-optical (EO) properties of π-conjugated systems have been the subject of intense interest during the past several decades. In this mini-review we focus on semiconducting materials based on alkyne π-conjugation, with particular emphasis on those examples from our laboratory of chromophores containing a silole core. Several closely related examples from the literature are also discussed.

Resonance Raman Characterization Of The Peroxo And Hydroperoxo Intermediates In Cytochrome P450, Ilia G. Denisov, Piotr J. Mak, Thomas M. Makris, Stephen G. Sligar, James R. Kincaid

Chemistry Faculty Research and Publications

Resonance Raman (RR) studies of intermediates generated by cryoreduction of the oxyferrous complex of the D251N mutant of cytochrome P450_cam (CYP101) are reported. Owing to the fact that proton delivery to the active site is hindered in this mutant, the unprotonated peroxo-ferric intermediate is observed as the primary species after radiolytic reduction of the oxy-complex in frozen solutions at 77 K. In as much as previous EPR and ENDOR studies have shown that annealing of this species to ∼180 K results in protonation of the distal oxygen atom to form the hydroperoxo intermediate, this system has been exploited to …

Synthesis, Structure And Magnetic Properties Of Oxy-Anion Based Magnetic Solids Containing Transition Metal Oxide Nanostructures, Kulugammana Gedera Ranmohotti

All Dissertations

Inline with the focus of our research, my goal for this dissertation study is to further explore new classes of magnetic insulators exhibiting novel properties. The scope of this work is twofold: 1) the exploratory synthesis of polyanion-based mixed-framework compounds containing transition metal oxide magnetic nanostructures, and 2) the investigation of the structure/property correlation with respect to the spin couplings in confined lattices. These studies are of fundamental and technological importance regarding the long-term development of low-dimensional magnetic solids for device applications in especially information storage and quantum computing. Several interesting and significant transition metal based silicate, phosphate arsenate and …

Lagrangian Analysis Of Low Altitude Anthropogenic Plume Processing Across The North Atlantic, E. Real, K. S. Law, H. Schlager, A. Roiger, H. Huntrieser, J. Methven, M. Cain, J. Holloway, J. A. Neuman, T. Ryerson, F. Flocke, J. De Gouw, E. Atlas, S. Donnelly, D. Parrish

Chemistry Faculty Publications

The photochemical evolution of an anthropogenic plume from the New-York/Boston region during its transport at low altitudes over the North Atlantic to the European west coast has been studied using a Lagrangian framework. This plume, originally strongly polluted, was sampled by research aircraft just off the North American east coast on 3 successive days, and then 3 days downwind off the west coast of Ireland where another aircraft re-sampled a weakly polluted plume. Changes in trace gas concentrations during transport are reproduced using a photochemical trajectory model including deposition and mixing effects. Chemical and wet deposition processing dominated the evolution …

Organic Chemostratigraphic Markers Characteristic Of The (Informally Designated) Anthropocene Epoch, Michael A. Kruge

Department of Earth and Environmental Studies Faculty Scholarship and Creative Works

Recognizing the tremendous collective impact of humans on the environment in the industrial age, the proposed designation of the current time period as the Anthropocene Epoch has considerable merit. One of the signature activities during this time continues to be the intensive extraction, processing, and combustion of fossil fuels. While fossil fuels themselves are naturally-occurring, they are most often millions of years old and associated with deeply buried strata. They may be found at the surface, for example, as natural oil seeps or coal seam outcrops, but these are relatively rare occurrences. Fossil fuels and their myriad by-products become the …

Study On Methods Of Simultaneous Multi-Component Analysis., Jennifer Bernice Ashie

Electronic Theses and Dissertations

Many new instrumentation and different instrumental techniques have been developed to deal with increasing complexity of samples encountered. Many researchers also have coupled these instrumental techniques with chemometric algorithms to assist in the quantitative analysis of multi-component samples in the hope of alleviating the need of tedious separation and cleanup procedures. These newer chemometric procedures tend to be complex and difficult to understand and implement and are successful under different circumstances and conditions. In this study, we start from the very simple beginning and examine the factors that can present difficulties with obtaining the correct results and observe how the …

Studies Of Surfactants Effect On Riboflavin Fluorescence And Its Determination In Commercial Food Products And Vitamin Tablets., William Emmanuel Ghann

Electronic Theses and Dissertations

A simple and economical fluorometer using blue LEDs excitation sources and simple PMT detection had been built, assembled, optimized, and employed for measurement of fluorescence from riboflavin (vitamin B₂). Surfactants have been known to enhance the intensity of fluorescence of fluorescent compounds. Fluorescence analysis of riboflavin in the presence of various anionic, cationic, and nonionic surfactants was also conducted to determine if they could improve analysis. However, the surfactants employed did not seem to have any meaningful enhancement; in fact, some actually diminished the fluorescence intensity of riboflavin. The procedure was linear for riboflavin from 0.01 to 2.5 …

Towards The Design And Syntheses Of Novel Triads Comprising Single Robson-Type Macrocyclic Dicopper(Ii) Cores Flanked By Two Terminal Polypyridyl Ruthenium(Ii) Complexes., Leslie Shane Moody

Electronic Theses and Dissertations

Progress toward the syntheses of new tetranuclear bimetallic complexes of copper(II) and ruthenium(II) was realized. The designed triads comprise a central binuclear copper(II) complex with a tetraiminodiphenolate macrocyclic Robson-type compartmental ligand. In the envisioned complexes, the macrocyclic core is further functionalized by attachment of two polypyridyl ruthenium(II) complexes. A novel dibrominated dicopper(II) Robson complex was formed by the 2:2:2 condensation reaction of 4-bromo-2,6-diformylphenol and 1,3- diaminopropane with cupric chloride. Similarly, a new dibrominated dizinc(II) was synthesized from zinc tetrafluoroborate and the same diamine and dialdehyde. The new dicopper(II) complex did not heterocouple with borylated substrates under explored Suzuki reaction conditions. …

Nondestructive Evaluation Of Aircraft Composites Using Terahertz Time Domain Spectroscopy, Christopher D. Stoik

Theses and Dissertations

Terahertz (THz) time domain spectroscopy (TDS) was assessed as a nondestructive evaluation technique for aircraft composites. Material properties of glass fiber composite were measured using both transmission and reflection configuration. The interaction of THz with a glass fiber composite was then analyzed, including the effects of scattering, absorption, and the index of refraction, as well as effective medium approximations. THz TDS, in both transmission and reflection configuration, was used to study composite damage, including voids, delaminations, mechanical damage, and heat damage. Measurement of the material properties on samples with localized heat damage showed that burning did not change the refractive …

Synthesis And Evaluation Of Structural Analogs Of Escherichia Coli Lipid A For Application Towards Cd14-Targeting Glycotherapeutics, Aileen Fay Galos Bongat

Dissertations

Lipid A is a glucosamine-based phospholipid that anchors carbohydrate molecules to the outer membrane of most Gram-negative bacteria. During severe infection, this amphiphilic macromolecule invoke a strong and acute pro-inflammatory response that leads to sepsis and ultimately to septic shock, organ failure and death. Thus, following the convention that the best antidote is often a derivative of the parent agonistic molecule, researchers have actively pursued the idea of creating an analog of Lipid A that can block the cellular receptor for this molecule and thereby arrest the cascade of events that lead to sepsis. Consequently, we became interested in creating …

Chemistry's Essential Tensions: Three Views Of A Science, Roald Hoffmann

IMSA Great Minds Program ®

In this generously illustrated lecture several views of chemistry will be presented, stressing its psychological dimension and its tie to the arts: First of all, chemistry is, as it has always been, the art, craft, business of substances and their transformations. It is now also the science of microscopic molecules, both simple and complex. And then there are people’s perceptions of chemistry - alternating between seeing the healing and the hurting aspects of this truly anthropic science. The underlying psychological tensions of this truly anthropic science will be explored.

The Birge Sponer Extrapolation, Carl W. David

Chemistry Education Materials

The Birge Sponer extrapolation is explained using examples.

Resonance Raman Interrogation Of The Consequences Of Heme Rotational Disorder In Myoglobin And Its Ligated Derivatives, Freeborn Rwere, Piotr J. Mak, James R. Kincaid

Chemistry Faculty Research and Publications

Resonance Raman spectroscopy is employed to characterize heme site structural changes arising from conformational heterogeneity in deoxyMb and ligated derivatives, i.e., the ferrous CO (MbCO) and ferric cyanide (MbCN) complexes. The spectra for the reversed forms of these derivatives have been extracted from the spectra of reconstituted samples. Dramatic changes in the low-frequency spectra are observed, where newly observed RR modes of the reversed forms are assigned using protohemes that are selectively deuterated at the four methyl groups or at the four methine carbons. Interestingly, while substantial changes in the disposition of the peripheral vinyl and propionate groups can be …

Dynamic Ordering Transitions Of Liquid Crystals Driven By Interfacial Complexes Formed Between Polyanions And Amphiphilic Polyamines, Michael I. Kinsinger, Maren E. Buck, Fernando Campos, David M. Lynn, Nicholas L. Abbott

Chemistry: Faculty Publications

We report the design of an amphiphilic polyamine (polymer 1) based on poly(2-alkenyl azlactone) that strongly couples the formation of polyelectrolyte complexes at aqueous/liquid crystal (LC) interfaces to ordering transitions in the LC. We demonstrate that the addition of a strong anionic polyelectrolyte to aqueous solutions in contact with polymer 1-laden LC interfaces (prepared by Langmuir-Schaefer transfer of monolayers of polymer 1 onto micrometerthick films of nematic LC) triggers ordering transitions in the LCs. We further demonstrate that changes in the ordering of the LCs (i) are driven by electrostatic interactions between the polyelectrolytes, (ii) involve multivalent interactions between the …

Book I, Otto Vogl: Papers And Patents, 1948-1970, Jane C. Vogl

Emeritus Faculty Author Gallery

Books I-XII include citations to Otto Vogl's publications and patents. Printed versions of these twelve volumes are also available in the Integrated Sciences and Engineering Library of the University of Massachusetts in Amherst. MA, Lederle Graduate Research Center. The printed volumes include the full reprints of all cited publications.

Centers Of Polymer Science: Introduction, Otto Vogl

Emeritus Faculty Author Gallery

Centers of Polymer Science describes polymer research activities taking place in Europe, Asia, and Australia primarily during the years between 1980 and 2000. This series of articles shows and records the activity in Polymer Science in this part of polymer history.

Preparation Of Carboxylic Acid Functionalized Glycopolymers Through Raft And Post-Polymerization Modification For Biomedical Application, Husnu Alp Alidedeoglu

Dissertations

The primary theme of this dissertation involves the synthesis of well-defined primary amine functionalized polymers, subsequent modification of the polymers to produce novel carboxylic acid functionalized glycopolymers and surface polymerization of these systems utilizing controlled polymerization techniques. Additionally, the synthesis of new water-based allylic copolymer latexes is described. Carbohydrates are natural polymers which possess unlimited structural variations. They carry a huge density of information, and play major roles in recognition events and complex biological operations. For example, hyaluronic acid (HA), an anionic glycosaminoglycan, provides lubricating and cushioning properties in the extracellular matrix and has been found to be involved in …

Photopolymerization And Characterization Of Thiol-Enes And Thiourethanes, Qin Li

Dissertations

Compared to conventional acrylic monomer systems, thiol-ene photopolymerization, an efficient click process leading to the formation of dense and uniform molecular networks, has several distinct advantages including relative insensitivity to oxygen inhibition, high monomer conversion and low shrinkage. Although there has been a revival of interest in thiol-enes in the past 6 years, the structure-property relationship of these networks has not been explored in detail. For future applications, thiol-enes with higher shelf-life stability and glass transition temperatures need to be used. Sulfur containing urethanes, thiourethanes and dithiourethanes are a class of widely used materials due to their distinct properties such …

Adsorption Of Propane On The Magnesium Oxide (100) Surface And Synthesis Of Anodized Aluminum Oxide, Michael John Felty

Doctoral Dissertations

This work is divided into two parts: the adsorption of propane on the magnesium oxide (100) surface and the synthesis of anodized aluminum oxide. The adsorption properties of propane on the MgO (100) surface were investigated using high-resolution volumetric isotherm techniques and a computational study was accomplished using Materials Studio. From the adsorption work, the two-dimensional isothermal compressibility, the isosteric heat of adsorption, the differential enthalpy, and the differential entropy of adsorption can be calculated. Three distinct layers of propane were observed to form on the MgO (100) surface and it was determined that a phase transition occurs at 162 …

Molecular Hydrogen Adsorbed On Mgo (100) Surfaces: A Thermodynamic Study, Lillian Ruth Frazier

Doctoral Dissertations

The thermodynamics of molecular hydrogen adsorbed on MgO (100) surfaces has been examined using high resolution volumetric adsorption isotherm techniques. These studies were undertaken using highly perfect, narrow size distributed MgO nanocubes with essentially single (100) facet exposure and extremely high chemical purity. A narrowly spaced (in temperature) series of isotherms were performed between the temperatures of ~7K and the triple point (13.8 K) using H₂ and D₂ gas.

A minimum of five, and in some cases seven, discrete adsorption steps are clearly observed in each isotherm trace. Analysis of these data indicate that the monolayer film forms …

New Carbon-Carbon Bond Forming Reactions Mediated By Boron And Transition Metal Halides, Travis R. Quick

Doctoral Dissertations

This dissertation summarizes the recent use of boron and transition metal halides to form new carbon-carbon bonds. Several novel reactions have been discovered. These include the haloallylation of aryl aldehydes with boron trihalide; alkyne-aldehyde couplings mediated by boron trihalide to give either (Z,Z)-1,5-dihaloalkenes or (Z,E)-1,5- dihaloalkenes; dehydroxylation of benzylic alcohols and in situ generated benzylic alcohol salts with iron(III) chloride and triethylsilane to afford diarylmethanes; and, the alkenylation of allylic, benzylic, and propargylic alcohols with phenylacetylenes and titanium(IV) halide. The results of these studies strongly imply a cationic mechanism. The reaction methodology of the research described herein can be characterized …

Three-Dimensional Microfluidic Devices Fabricated In Layered Paper And Tape, Andres W. Martinez, Scott T. Phillips, George M. Whitesides

Chemistry and Biochemistry

This article describes a method for fabricating 3D microfluidic devices by stacking layers of patterned paper and double-sided adhesive tape. Paper-based 3D microfluidic devices have capabilities in microfluidics that are difficult to achieve using conventional open-channel microsystems made from glass or polymers. In particular, 3D paper-based devices wick fluids and distribute microliter volumes of samples from single inlet points into arrays of detection zones (with numbers up to thousands). This capability makes it possible to carry out a range of new analytical protocols simply and inexpensively (all on a piece of paper) without external pumps. We demonstrate a prototype 3D …

The Relationship Betweeen Dynamic And Chemical Factors On The Morphology In Aot-Water-Polymer Systems, Jolanta Elzbieta Marszalek

Dissertations

Photopolymerization of reverse microemulsion demonstrates strong influences from dynamical and chemical factors on morphology of formed polymer systems. Upon polymerization the clear microemulsion with nanoscale structures transforms into opaque films with larger aggregates that scatter light. Studied here were microemulsions based on acrylate and on thiol-ene chemistries. The difference in the two reaction mechanisms results in the phase separation occurring at different stages of the material formation. Consequently, the morphology of the material demonstrates distinct dissimilarities in the two systems. In addition, the chemical structure of the monomers promotes these morphological differences. When the microemulsion is composed of acrylate and …

Synthesis Of A Dirhodium Tetraphosphine Catalyst And The Effect Of Various H2/Co Ratios On The Catalyst, Christina Joanne Sweeney

Honors Theses

No abstract provided.

Centers Of Polymer Science: Introduction, Otto Vogl

Otto Vogl

Centers of Polymer Science describes polymer research activities taking place in Europe, Asia, and Australia primarily during the years between 1980 and 2000. This series of articles shows and records the activity in Polymer Science in this part of polymer history.