Chemistry Commons^™

Investigating The Effects Of E219 Mutations In M. Tuberculosis Indole-3-Glycerol Phosphate Synthase, Cinthya Moran

Theses, Dissertations and Culminating Projects

Tuberculosis (TB) is a serious infectious disease caused by Mycobacterium tuberculosis. Tuberculosis drug resistance is increasingly a problem, but recent research has provided results that suggest Indole-3-Glycerol Phosphate Synthase (IGPS) could be a potential drug target. IGPS is an enzyme that catalyzes the fourth step in the tryptophan biosynthesis pathway, a crucial process for optimal Mycobacterium tuberculosis growth. In this research, we studied IGPS from Mycobacterium tuberculosis (MtIGPS) to shed light on a particular conserved residue that has not been studied in depth in any IGPS homolog. My investigation focuses on understanding the role of the active site residue E219. …

A Dft Analysis And Simple Hamiltonian Modeling Of A Molecular System Employed For Experimental Evidence Of Quantum Teleportation, Pedro Ulises Medina Gonzalez

Open Access Theses & Dissertations

Radical ion pairs (RIPs) have been used to demonstrate quantum teleportation in molecular systems for applications in quantum information science. Covalent organic donor-acceptor (D-A) molecules can produce RIPs through photo-induced charge transfer and an additional radical (R) molecule makes quantum teleportation possible. We present the electronic structure and analyze charge transfer excited states of a recently studied [1] D-A-R molecular system using density functional theory. The distances between donor-acceptor and donor-radical are about 12.9 \AA $\,$ and 21.9 \AA, respectively. The excitation energies are calculated using the perturbative delta-SCF method and agree with other conventional excited-state methods and experimental reference …

Advances In One-Electron Self-Interaction-Correction Methods For Accurate And Efficient Self-Interaction-Free Density Functional Calculations, Selim Romero

Open Access Theses & Dissertations

Density functional theory (DFT) is a widely used computational method for studying electronic structures of atoms, molecules, and solids. It provides an exact theory for obtaining ground state energy from the ground state density. However, since the exact exchange-correlation functional remains unknown, approximate exchange-correlation functionals called approximate density approximations (DFAs) are used. The foundation of many DFAs is the local spin density approximation (LSDA). It serves as the starting point for constructing various DFAs. However, DFAs are prone to self-interaction errors (SIE) due to the improper cancellation of the approximate exchange energy and the Coulomb energy. This issue impacts the …

Manufacturing Of A Flexible Piezoelectric Nanogenerator By Functionalizing Polyvinylidene Fluoride With Lithium Tantalate And Multiwalled Carbon Nanotubes For Energy Harvesting And Sensing Applications, Islam Uddin Shipu

Theses and Dissertations

Mechanical energy is one of the readily accessible green energy sources that could be employed to meet the small-scale energy requirement. In order to capture mechanical energy, power the next generation of electronic gadgets, and health monitoring flexible piezoelectric nanogenerators made of light weight polymers and carbon nanotubes have drawn a lot of attention. Lithium tantalate (LiTaO3), a ferroelectric substance, was prepared here and utilized to create a flexible piezoelectric nanogenerator (FPNG). A compact piezoelectric nanogenerator that successfully transfers mechanical energy into electricity was then created using lightweight polyvinylidene fluoride (PVDF), multi-walled carbon nanotube (MWCNT), and LiTaO3 nanoparticles. To create …

Expansion Of The Diazacyclobutene Motif For Antiparasitic Evaluation, Brock Alexander Miller

All Dissertations

Molecules containing N-heterocycles are prevalent in pharmaceutical settings. The ability to generate highly functionalized molecules containing N-heterocycles in very few synthetic operations is valuable for drug discovery. Our group has developed a two-step synthesis to access a rarely studied diazacyclobutene scaffold via a formal [2+2] cycloaddition between 4-phenyl-1,2,4-triazolinedione and electron-rich thioalkynes. Our interest in this scaffold increased exponentially from promising preliminary biological evaluations against a protozoan parasite, Trypanosoma brucei. While we were able to double the number of historical examples of this scaffold, there were significant limitations in our methodology. The most notable limitations were the lack …

Electron-Transfer Mediated Photo-Switching In Nanoparticles, Liaoran Cao

All Dissertations

Previous publications from our lab demonstrated viable approaches to design a photo-switching nanoparticle with arguably superior brightness and photostability resulting in an improved resolution in localization-based microscopy, as compared to other photo-switching dyes or particles. As a follow-up, this dissertation is focused on two major tasks: first, developing nanoparticles with better photo-switching properties for super-resolution imaging; second, trying to achieve a better physical picture of the mechanisms involved in photo-switching, including polaron dynamics, charge transfer, and energy transfer. A new class of photo-switchable nanoparticles was developed by blending conjugated polymer semiconductor with fullerene-based electron acceptors, and further blending with polystyrene …

Atom Economical Reactions Of Terpenoids And Post-Consumer Plastics With Sulfur, Charini Maladeniya

All Dissertations

The production of Ordinary Portland Cement (OPC) and its uses have a complicated environmental impact, which is influenced by infrastructure development and building operations as well as CO₂ emissions, which account for 7% of all worldwide CO₂ emissions. Due to the increasing population, production is still ongoing. The search for cement and construction materials produced with zero to low CO₂ emissions is therefore continuous. Finding recyclable, CO₂ gas-free biocomposites with high sulfur content that can rival the mechanical properties of popular building supplies like Portland cement is the primary objective of the research discussed in this …

Atomically Dispersed Cu-N3 On Hollow Spherical Carbon Nitride For Acetaminophen Degradation: Generation Of 1o2 From H2o2, Shuoyuan Tian, Yu Yin, Mengxuan Liu, Lei Shi, Shu Zhang, Abdul Hannan Asif, Xuan Li, Mengqiong Liu, Xiaoguang Duan, Shaobin Wang, Hongqi Sun

Research outputs 2022 to 2026

Discharge of recalcitrant pharmaceuticals into aquatic systems has caused severe impacts on public health and ecosystem. Advanced oxidation processes (AOPs) are effective for eliminating these refractory pollutants, for which single-atom catalysts (SACs) become the state-of-the-art materials owing to the maximized exposure of active metal sites. In this work, hollow spherical graphitic carbon nitride (hsCN) was fabricated to incorporate copper species to develop Fenton-like catalysts for acetaminophen (ACT) removal. Through pyrolysis of supramolecular assemblies derived from melamine-Cu complex and cyanuric acid, single atom Cu-N3 sites were anchored on hsCN by N-coordination to obtain SACu-hsCN. In virtue …

Leveraging Non-Covalent Interactions Between Small Organic Molecules And Inorganic Scaffolds In The Design Of Advanced Materials, Jonathan Lefton

Chemistry Theses and Dissertations

Powder diffraction is a powerful tool for studying crystal structures, especially as it relates to interactions of small organic molecules with inorganic compounds. The first part of this dissertation involves small organic ligands interacting with metal-organic framework, MOF-74. The first and simplest iteration involves the crystal structure solution of a neat, liquid loading of n-propylmercaptan to the open metal sites within the MOF-74 pores. Later studies investigate the leveraging of a similarly sized bitopic ligand in the solution loading of 1,2-ethanedithiol, which results in the amorphization of MOF-74. Having no crystallinity, amorphous or severely defected materials can be a …

The Investigation Of Singlet Fission From The Perspective Of Hierarchy Of Pure States (Hops), Tao (James) Chen

Chemistry Theses and Dissertations

This thesis provides a preliminary investigation of singlet fission from the perspective of Hierarchy of pure states (HOPS), which provides a numerical exact solution for the investigation of a series of open quantum systems. Since the inception of the concept of singlet fission about half a century ago, this photo-physical process has attracted the attention of a multitude of researchers and has been extensively studied theoretically and experimentally. However, these previous methods for the investigation of singlet fission focus more or less on tackling the underlying mechanisms of singlet fission from the perspective of perturbation. So far, the HOPS method …

The Investigation Of Singlet Fission From The Perspective Of Hierarchy Of Pure States (Hops), Tao (James) Chen

Chemistry Theses and Dissertations

This thesis provides a preliminary investigation of singlet fission from the perspective of Hierarchy of pure states (HOPS), which provides a numerical exact solution for the investigation of a series of open quantum systems. Since the inception of the concept of singlet fission about half a century ago, this photo-physical process has attracted the attention of a multitude of researchers and has been extensively studied theoretically and experimentally. However, these previous methods for the investigation of singlet fission focus more or less on tackling the underlying mechanisms of singlet fission from the perspective of perturbation. So far, the HOPS method …

Elucidating The Impacts Of Learning Communities On Retention, Student Sense Of Belonging, And Self-Efficacy In Stem, Honour Williams

Master of Science in Chemical Sciences Theses

Student sense of belonging (SoB) and self-efficacy (SE) are necessary aspects of promoting achievement and success in the STEM fields. This study focuses on how learning communities affect students' SoB and SE in relation to STEM as well as demographics, including race, gender, and first-generation status. Students enrolled in either the introductory chemistry lecture or the first-year experience course (students grouped by similar STEM major) were asked to complete a STEM attributes survey (Likert scale) to assess their overall SoB to the university and their chosen major as well as their level of SE in relations to those fields. To …

The Driving Effects Of Common Atmospheric Molecules For Formation Of Clusters: The Case Of Sulfuric Acid, Formic Acid, Hydrochloric Acid, Ammonia, And Dimethylamine, Olivia M. Longsworth, Conor J. Bready, George C. Shields

Open Access Fund Publications

One of the main sources of uncertainty for understanding global warming is understanding the formation of larger secondary aerosols. The beginning stages start with the formation of prenucleation complexes from precursor monomers of acids, bases, and organic molecules. The detailed interactions responsible for prenucleation and subsequent aerosol formation are difficult to decipher experimentally. We present a computational chemistry study of the interactions between three different acid molecules and two different bases. By combining a comprehensive search routine covering many thousands of configurations at the semiempirical level with high level quantum chemical calculations of approximately 1000 clusters for every possible combination …

Electrochemical Hydrogen Gas Production And Carbon Dioxide Sequestration Via In Situ Formation Of Nickel (Ii) Tris-(Pyridinethiolate) Derivatives, Dayalis Sv. Brown

Dissertations and Theses

In the research presented, we use electrochemical techniques, such as cyclic voltammetry and controlled potential electrolysis, to study in situ formation of hydrogen evolution catalysts which also reduce carbon dioxide. Using pyridinethiol-based ligands and a nickel (II) precursor, both homo- and heteroleptic complexes were investigated as catalysts to produce alternative fuels while mitigating greenhouse gas emissions. Existing synthetic procedures to obtain these Ni(II) catalysts lead to low yields of the complexes and difficulties in crystallizing samples for further analysis, limiting sample size and restricting the number of studies. While current research is heavily focused on photochemically-driven experiments, given that solar …

The Emergence Of Zerovalent Carbon Compounds From Structural Curiosities To Organocatalysts, Allegra L. Liberman-Martin

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Low-valent main group compounds have reactivity patterns and properties reminiscent of transition metals. While divalent carbon compounds such as carbenes are widely studied ligands and organocatalysts, zerovalent carbon species have received considerably less attention. This perspective highlights the properties and reactivity of zerovalent carbon compounds, focusing on their first applications as organocatalysts for small molecule reduction and polymerization reactions.

Synthesis And Reactivity Of Dihydrogen Diruthenium Complexes., Ryder J. Downey, Robert Chin

Summer Undergraduate Research Program (SURP) Symposium

Having two open coordination sites on the diruthenium complex makes for the ability to be able to be more precise when interacting with other compound. The side-on bonding of the bis(dihydrogen) gives it unique characteristics as well as unique capabilities. The Oganotransition Metal Chemistry book says that the dihydrogen is bonded by the donation of electrons from the H-H sigma bond as well as the back donation of electron density through the transition metal.3

In the past, many groups have studies on a mononuclear Ruthenium compound similar to the one we are synthesizing (see figure one). Our goal was to …

Watermark Hiding In Hdr Image Based On Visual Saliency And Tucker Decomposition, Roa'a M. Al-Airaji, Ibtisam A. Aljazaery, Haider Th. Salim Alrikabi

Karbala International Journal of Modern Science

Recently, great attention has been paid to high dynamic range (HDR) images because of their richly detailed and high dynamic range of intensity. The need for pre-processing of the HDR image format with tone mapping (TM) operators makes it unique; the TM operators are provided on display with a low dynamic range (LDR). On the other hand, TM can be regarded as an inevitable attack when protecting HDR image ownership is considered. An adaptive approach for concealing watermarks based on visual saliency and Tucker decomposition has been presented in this article. In the first step, three feature maps were produced …

Recent Progress Of Bifunctional Electrocatalysts For Oxygen Electrodes In Unitized Regenerative Fuel Cells, Tian-Long Zheng, Ming-Yu Ou, Song Xu, Xin-Biao Mao, Shi-Yi Wang, Qing-Gang He

Journal of Electrochemistry

Unitized regenerative fuel cells (URFCs), which oxidize hydrogen to water to generate electrical power under thefuel cells (FCs) mode and electrolyze water to hydrogen under the water electrolysis (WE) mode for recycling, areknown as clean and sustainable energy conversion devices. In contrast to the hydrogen oxidation reaction (HOR) andhydrogen evolution reaction (HER) on the hydrogen electrode side, the sluggish kinetics of oxygen reduction reaction(ORR) and oxygen evolution reaction (OER) on the oxygen electrode side requires highly efficient bifunctional oxygencatalysts. Conventional precious metal oxygen catalysts combine Pt and IrO₂ with excellent ORR and OER activities toachieve bifunctional electrocatalysis performance, but …

Ultramicroelectrode Experiments: Principles, Fabrications And Voltmmetric Behaviors, Zhen Ma, Jia-Yang Lin, Wen-Jing Nan, Lian-Huan Han, Dong-Ping Zhan

Journal of Electrochemistry

Due to the small size at least in one dimension (< 25 μm), ultramicroelectrode (UME) has small electric-double-layer capacitance, low IR drop, rapid mass transfer rate, fast response, high signal/noise ratio and high spatiotenporal resolution. UME is qualified not only to study the kinetics of fast electrode processes, but also to act as the probe of scanning electrochemical microscopies to obtain the localized chemical or electrochemical reactivity of the substrates. Thus, UMEs play a significant role in various research domains of electrochemistry, and have become an important electrochemical experimental method. Herein, we will introduce the basic principles, a simple fabrication method and voltammetric experimental protocols of UME, providing a guide to carry out the UME experiments.

Band Alignments Of Metal/Oxides-Water Interfaces Using Ab Initio Molecular Dynamics, Yong-Bin Zhuang, Jun Cheng

Journal of Electrochemistry

Band alignments of electrode-water interfaces are of crucial importance for understanding electrochemical interfaces. In the scenario of electrocatalysis, applied potentials are equivalent to the Fermi levels of metals in the electrochemical cells; in the scenario of photo(electro)catalysis, semiconducting oxides under illumination have chemical reactivities toward redox reactions if the redox potentials of the reactions straddle the conduction band minimums (CBMs) or valence band maximums (VBMs) of the oxides. Computational band alignments allow us to obtain the Fermi level of metals, as well as the CBM and VBM of semiconducting oxides with respect to reference electrodes. In this tutorial, we describe …

Electrochemical Scanning Tunneling Microscopy: Taking The Initial Stage Of Cu Electrodeposition On Au(111) As An Example, Zhuo Tan, Kai-Xuan Li, Bing-Wei Mao, Jia-Wei Yan

Journal of Electrochemistry

Electrochemical scanning tunneling microscopy (ECSTM) plays an important role in the field of electrochemistry, which can obtain potential-dependent structural information of electrode surface with high spatial resolution and observe some reaction processes in electrolyte solutions, and provide a powerful way to understand the interfacial structure and electrode processes from the perspective of high spatial resolution. In this article, the study of electrodeposition of Cu on Au (111) by ECSTM is taken as an example to introduce the experimental methods required for ECSTM and share our experience with other electrochemical groups. Firstly, the working principle of STM is introduced so that …

62nd Annual Rocky Mountain Conference On Magnetic Resonance

Rocky Mountain Conference on Magnetic Resonance

Final program, abstracts, and information about the 62nd annual meeting of the Rocky Mountain Conference on Magnetic Resonance, co-endorsed by the Colorado Section of the American Chemical Society and the Society for Applied Spectroscopy. Held in Sonesta Denver Downtown, Denver, Colorado, July 23-27, 2023.

Exfoliation And Spray Deposition Of Graphene Nanoplatelets In Ethyl Acetate And Acetone: Implications For Additive Manufacturing Of Low-Cost Electrodes And Heat Sinks, Muhammed Ramazan Oduncu, Zhifan Ke, Bingyuan Zhao, Zhongxia Shang, Robin Simpson, Haiyan Wang, Alexander Wei

Department of Chemistry Faculty Publications

Nonaqueous dispersions of graphene nanoplatelets (GrNPs) can be used to prepare thin films and coatings free of surfactants, but typically involve polar organic solvents with high boiling points and low exposure limits. Here, we describe the mechanochemical exfoliation and dispersion of GrNPs in volatile aprotic solvents such as ethyl acetate (EtOAc) and acetone, which rank favorably in green solvent selection guides. GrNPs in powder form were exfoliated with a solvent on a horizontal ball mill for 48 h and then sonicated at moderate power to produce suspensions in excess of 300 μg/mL with minimum loss of dispersion stability over 7 …

Understanding Formation And Roles Of Niᴵᴵ Aryl Amido And Niiii Aryl Amido Intermediates In Ni-Catalyzed Electrochemical Aryl Amination Reactions, Jian Luo, Michael T. Davenport, Chad Callister, Shelley D. Minteer, Daniel H. Ess, T. Leo Liu

Chemistry Faculty Research & Creative Works

Ni-catalyzed electrochemical aryl amination (e-amination) is an attractive, emerging approach to building C-N bonds. Here, we report in-depth experimental and computational studies that examined the mechanism of Ni-catalyzed e-amination reactions. Key NiII-amine dibromide and NiII aryl amido intermediates were chemically synthesized and characterized. the combination of experiments and DFT calculations suggest (1) there is coordination of an amine to the NiII catalyst before the cathodic reduction and oxidative addition steps, (2) a stable NiII aryl amido intermediate is produced from the cathodic half-reaction, a critical step in controlling the selectivity between cross-coupling and undesired homo-coupling reaction pathways, (3) the diazabicycloundecene …

Thieno[3,4-D]Pyrimidin-4(3h)-Thione: An Effective, Oxygenation Independent, Heavy-Atom-Free Photosensitizer For Cancer Cells, Luis A. Ortiz-Rodríguez, Sean J. Hoehn, Heather J. Folkwein, Liraz Levi, Carlos E. Crespo-Hernández

Faculty Scholarship

All-organic, heavy-atom-free photosensitizers based on thionation of nucleobases are receiving increased attention because they are easy to make, noncytotoxic, work both in the presence and absence of molecular oxygen, and can be readily incorporated into DNA and RNA. In this contribution, the DNA and RNA fluorescent probe, thieno[3,4-d]pyrimidin-4(1H)-one, has been thionated to develop thieno[3,4-d]pyrimidin-4(3H)-thione, which is nonfluorescent and absorbs near-visible radiation with about 60% higher efficiency. Steady-state absorption and emission spectra are combined with transient absorption spectroscopy and CASPT2 calculations to delineate the electronic relaxation mechanisms of both pyrimidine derivatives in aqueous and acetonitrile solutions. It is demonstrated that thieno[3,4-d]pyrimidin-4(3H)-thione …

C···O And Si···O Tetrel Bonds: Substituent Effects And Transfer Of The Sif3 Group, Zhihao Niu, Qiaozhuo Wu, Qingzhong Li, Steve Scheiner

Chemistry and Biochemistry Faculty Publications

The tetrel bond (TB) between 1,2-benzisothiazol-3-one-2-TF₃-1,1-dioxide (T = C, Si) and the O atom of pyridine-1-oxide (PO) and its derivatives (PO-X, X = H, NO₂, CN, F, CH₃, OH, OCH₃, NH₂, and Li) is examined by quantum chemical means. The Si···O TB is quite strong, with interaction energies approaching a maximum of nearly 70 kcal/mol, while the C···O TB is an order of magnitude weaker, with interaction energies between 2.0 and 2.6 kcal/mol. An electron-withdrawing substituent on the Lewis base weakens this TB, while an electron-donating group has the opposite …

Enhanced Quantum Chemistry With Machine Learning, Brock Dyer

Physics and Astronomy Summer Fellows

This file is a catalogue of the relevant quantum mechanical and computer programming topics that I learned during the summer which will be helping me to generate an artificial intelligence that will be able to perform computational chemical calculations at a much faster rate and comparable or better accuracy than current methods.

Carbon Nanotubes Animated, Nicholas Onyemeke

Chemistry Summer Fellows

In this project, I implemented the knowledge about carbon nanotubes into an animated short. The animated short is meant to simplify the research so that anyone can understand regardless of their background in science. The research I did was on how nanotubes can be used in the medical field as a measure to inhibit bacteria growth. A nanotube dye solution was synthesized to inoculate bacteria along with an antibiotic solution with the nanotubes. This was done to observe how well the nanotubes can inhibit bacteria growth without the need for a drug compared to the effectiveness when it has a …

Ortho-Fluoro Effect On The C–C Bond Activation Of Benzonitrile Using Zerovalent Nickel, Sébastien Lachaize, Dominique C. Gallegos, Juliana J. Antonio, Abdurrahman C. Atesin, Tülay A. Ateşin, William D. Jones

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Chemistry)

The effect of fluoro substitution on the C–C bond activation of aromatic nitriles has been studied by reacting a variety of fluorinated benzonitriles with the nickel(0) fragment [Ni(dippe)] and by locating the reaction intermediates and transition-state structures on the potential energy surface by using density functional theory calculations with the [Ni(dmpe)] fragment (dippe = 1,2-bis(diisopropylphosphino)ethane, dmpe = 1,2-bis(dimethylphosphino)ethane). As in the previous reports, the reaction of fluorinated benzonitriles with the [Ni(dippe)] fragment initially formed an η2-nitrile complex, which then converted to the C–CN bond activation product. Thermodynamic parameters for the equilibrium between these complexes have been determined experimentally in both …

Measuring And Enhancing The Ionic Conductivity Of Chloroaluminate Electrolytes For Al-Ion Batteries, Anthony J Lucio, Iwan Sumarlan, Elena Bulmer, Igor Efimov, Stephen Viles, Christopher J Zaleski

Faculty, Staff and Student Publications

At the core of the aluminum (Al) ion battery is the liquid electrolyte, which governs the underlying chemistry. Optimizing the rheological properties of the electrolyte is critical to advance the state of the art. In the present work, the chloroaluminate electrolyte is made by reacting AlCl3 with a recently reported acetamidinium chloride (Acet-Cl) salt in an effort to make a more performant liquid electrolyte. Using AlCl3:Acet-Cl as a model electrolyte, we build on our previous work, which established a new method for extracting the ionic conductivity from fitting voltammetric data, and in this contribution, we validate the method across a …