Chemistry Commons^™

Cooking With Chemistry: Marshmallows, Admin Stem For Success

STEM for Success Showcase

This lesson plan teaches students thermodynamics, foam, and other chemistry topics by cooking marshmallows.

Determining Bond Strengths And Dissociation Dynamics Of Diatomic Metal-Containing Ions By Photofragment Imaging, Schuyler P. Lockwood

Doctoral Dissertations

Studies of simple metal ion – ligand complexes have primarily focused on understanding their roles in activating C-H and C-C bonds. However, data are often lacking on the fundamental properties of these species, which can have unusual bond orders and cluttered electronic structures with many states of multi-reference character, complicating their treatment in theoretical studies. Experimental work determining high-precision bond energies, ground state identities and excited state dynamics of a wider variety of metal-containing ions is needed to establish a robust set of well-characterized benchmark molecules. This work describes studies of the energetics and dynamics of several MX⁺ species, …

More On The Demons Of Thermodynamics, Daniel P. Sheehan, Garret Moddel, James W. Lee

Chemistry & Biochemistry Faculty Publications

No abstract provided.

Structural Dynamics Of A Thermally Stressed Monoclonal Antibody Characterized By Temperature-Dependent H/D Exchange Mass Spectrometry., Nastaran N Tajoddin, Lars Konermann

Chemistry Publications

Differential scanning calorimetry (DSC) is a standard tool for probing the resilience of monoclonal antibodies (mAbs) and other protein therapeutics against thermal degradation. Unfortunately, DSC usually only provides insights into global unfolding, although sequential steps are sometimes discernible for multidomain proteins. Temperature-dependent hydrogen/deuterium exchange (HDX) mass spectrometry (MS) has the potential to probe heat-induced events at a much greater level of detail. We recently proposed a strategy to deconvolute temperature-dependent HDX data into contributions from local dynamics, global unfolding/refolding, as well as chemical labeling. However, that strategy was validated only for a small protein (Tajoddin, N. N.; Konermann, L.

Cysteine Metallochemistry And Metal Binding: Quantification Of The Thermodynamic Foundations Of Cellular Homeostasis, Matthew R. Mehlenbacher

Dartmouth College Ph.D Dissertations

Metals are required for life. Many metalloproteins contain cysteine in their metal-binding site (MBS) and cysteines are unique in that they are reactive, and strongly bind certain metals, which aid in metal selectivity and specificity. Using isothermal titration calorimetry (ITC), the thermodynamic foundation for metal binding, cellular protection, and transcriptional regulation, which all utilize cysteines in their MBS, are quantified.

In bacteria there are metalloprotein pathways that actively uptake mercury, which are regulated by the metalloregulatory protein MerR. MerR de-represses the transcription of these mer proteins in a metal-dependent manner. Using ITC, the thermodynamic foundation of the negative allosteric coupling …

Kinetic, Isotherm, And Thermodynamic Studies For Adsorptive Removal Of Basic Violet 14 From Aqueous Solution, Yasemi̇n Tamer, Hale Berber

Turkish Journal of Chemistry

In this study, the performance of chitosan based semi-IPN nanocomposite hydrogels for the adsorptive removal of basic violet 14 (BV14) from aqueous solution has been explored. Batch adsorption studies were conducted to determine the effect of various parameters on BV14 adsorption, and optimum values were reported as pH of 8, the adsorbent dosage of 0.025 g, initial BV14 concentration of 5 mg L^-1 and contact time of 90 min at a temperature of 25 °C. The semi-IPN hydrogel containing 0.5% by weight GO showed the improved adsorption capacity for BV14 compared to the neat hydrogel adsorbent, and the maximum …

Characterization Of Small Molecules And Ions By Atmospheric Pressure Ionization-Mass Spectrometry, Maleesha De Silva

Theses and Dissertations

Mass spectrometry (MS) has become a widely used technique for the characterization of a wide range of substances in diverse fields. The selection of appropriate ionization techniques, source parameters, charge carriers based on the analyte’s polarity is essential in MS as only the ions are detected. When using a soft ionization technique, single stage-MS at best provides only chemical composition; thus, tandem MS is needed to determine structural information and dissociation pathways. This dissertation focuses on the characterization of various small molecules and ions using different ionization techniques, charge carriers, and collision-induced dissociation (CID).

In Chapter II, commercially available ionic …

Physical Chemistry, Ruth E. Stark

Open Educational Resources

This is a provisional syllabus for Physical Chemistry I (Thermodynamics), to be taught using an OER Textmap in Fall, 2021.

Developing An Inquiry-Based Laboratory Project For Chem 142l Course At Bsu, Manuel Pina

Honors Program Theses and Projects

In addition to content knowledge, critical and independent thinking, scientific reasoning, and problem-solving skills are essential in preparing next generation of successful workforce. Since one of the biggest advantages of STEM disciplines is a “must-have” hands-on laboratory experience, it is intuitive to exploit this learning space to reinforce afore-mentioned skills. In this context, project-based (PBL) or inquiry-based (IBL) laboratory experiences are rapidly becoming mainstream pedagogical choice for many STEM instructors across United States.^[1-4] PBL, and IBL are learning experiences that offer students an opportunity to experience realistic scientific process of discovery through carefully designed inquiry-driven and/or open-ended investigative laboratory …

Can CP Be Less Than CV?, Yingbin Ge, Samuel L. Montgomery, Gabriel L. Borrello

All Faculty Scholarship for the College of the Sciences

Can C_P be less than C_V? This is a fundamental question in physics, chemistry, chemical engineering, and mechanical engineering. This question hangs in the minds of many students, instructors, and researchers. The first instinct is to answer “Yes, for water between 0 and 4 °C” if one knows that water expands as temperature decreases in this temperature range. The same question is asked in several Physical Chemistry and Physics textbooks. Students are supposed to answer that water contracts when heated at below 4 °C in an isobaric process. Because work is done to the contracting water, less …

Thermodynamics Of Ligand Binding And Global Structural Stability Of Human Serum Albumin, Matthew Walter Eskew

Dissertations and Theses

Protein structure is integral to its function. For the past 70 years differential scanning calorimetry has been used to measure protein structural stability. More recently it has been used to study macromolecular interactions. Interactions between proteins and ligands can manifest on differential scanning calorimetry melting curves or thermograms. Utilizing differential scanning calorimetry thermograms to detect or diagnose diseases has been a major goal in disease diagnostics. However, correlating specific ligand-protein interactions, as manifested in a thermogram, with a disease-specific plasma thermogram, has proven elusive.

Modified human serum albumin was utilized to develop a process to capture and retrieve ligands from …

Probing The Effects Of Heterogeneous Oxidative Modifications On The Stability Of Cytochrome, Victor Yin, Lars Konermann

Chemistry Publications

Covalent modifications by reactive oxygen species can modulate the function and stability of proteins. Thermal unfolding experiments in solution are a standard tool for probing oxidation-induced stability changes. Complementary to such solution investigations, the stability of electrosprayed protein ions can be assessed in the gas phase by collision-induced unfolding (CIU) and ion-mobility spectrometry. A question that remains to be explored is whether oxidation-induced stability alterations in solution are mirrored by the CIU behavior of gaseous protein ions. Here, we address this question using chloramine-T-oxidized cytochrome c (CT-cyt c) as a model system. CT-cyt c comprises various proteoforms that have …

Synthesis And Characterization Of Novel 4-Benzyloxyphenyl 4-[4-(N-Dodecyloxy)Benzoyloxy]Benzoate Liquid Crystal, Emi̇ne Balkanli, Fati̇h Çakar, Hale Ocak, Özlem Cankurtaran, Belkiz Bi̇lgi̇n Eran

Turkish Journal of Chemistry

Liquid crystal (LC) compound 4-Benzyloxyphenyl 4-[4-(n-dodecyloxy)benzoyloxy]benzoate (BDBB) was prepared and characterized. Inverse gas chromatography (IGC) was to be a beneficial analysis method for the research of thermodynamic characteristics of the new LC. Acetate and alcohol isomers were used to examine LC selectivity via the IGC technique at temperatures between 333.2 K and 483.2 K. The retention diagrams of n-heptane, n-octane, n-nonane, n-decane, undecane, dodecane, tridecane, n-butyl acetate, isobutyl acetate, ethyl acetate, n-propylbenzene, isopropylbenzene, ethylbenzene, chlorobenzene, and toluene on BDBB were plotted with temperatures of 483.2?493.2 K. Flory?Huggins interaction parameter and weight fraction activity coefficient at infinite dilution were researched for …

Predicting The Hydration Free Energy Of Small Alkanes And Alcohols From Custom, Electronic Structure-Based Force Fields, T. Ryan Rogers

Graduate Theses and Dissertations

Mathematical theories reveal the fundamental physics involved in experimentalphenomena. Computer models of such theories are routinely used to corroborate or explain experiments and predict properties of chemical systems. Therefore, an important effort in computational chemistry is the development of more accurate and efficient chemical models. Current-generation models are only beginning to approach experimental-quality predictions of hydration free energies (HFEs).Using computations of quantum mechanical (QM) forces and classical simulations based on these forces, I investigate models to predict several properties of solutes and solutions. This dissertation is a collection of projects exemplifying methods used to gain insight into chemical systems.

Simulations …

Isothermal Compressibility And Isobaric Thermal Shrinkage Of A Porous $\Alpha$-Alumina Compact: Thermodynamic Calculations, Yüksel Sarikaya, Müşerref Önal, Abdullah Devri̇m Pekdemi̇r

Turkish Journal of Chemistry

Two methods were proposed to calculate the thermodynamic parameters of porous ceramic compacts depending on their molar volume change with applied pressure and heating temperature, respectively. Molar volume of the porous $\alpha $-alumina ($\alpha $-Al$_{2}$O$_{3})$ compact was evaluated according to literature depending on both the applied pressure at room temperature and the heating temperature at atmospheric pressure. The isothermal compressibility coefficient, Gibbs energy, and work done on the compact by compression were calculated. The thermal shrinkage coefficient and activation energy as well as the change in enthalpy, entropy and Gibbs energy were calculated for partial sintering. The spontaneous nature of …

Cdse Quantum Dot Surface Chemistry Thermodynamics Via Isothermal Titration Calorimetry: An Emphasis On The Fundamentals, Megan Y. Gee

Theses and Dissertations

For several decades, the study and development of colloidal semiconductor nanocrystals, or quantum dots (QD), has become a rich field heralding improved integration into applications ranging from photovoltaics and photocatalysis to biomedical imaging and drug delivery. CdxSey is the most extensively studied QD system, however numerous compositional details still confound the nanocrystal field. Although CdSe QDs with native ligand coatings can show high fluorescence quantum yield and may be suitable for some applications, often times these original ligand layers are comprised of long aliphatic chains that preclude incorporation into biological matrices or severely impede charge transfer – depending on the …

Why Protein Conformers In Molecular Dynamics Simulations Differ From Their Crystal Structures: A Thermodynamic Insight, Fi̇li̇ppo Pullara, Mao Wenzhi, Mert Gür

Turkish Journal of Chemistry

Conformers generally deviate structurally from their starting X-ray crystal structures early in molecular dynamics (MD) simulations. Studies have recognized such structural differences and attempted to provide an explanation for and justify the necessity of MD equilibrations. However, a detailed explanation based on fundamental physics and validation on a large ensemble of protein structures is still missing. Here we provide the first thermodynamic insights into the radically different thermodynamic conditions of crystallization solutions and conventional MD simulations. Crystallization solution conditions can lead to nonphysiologically high ion concentrations, low temperatures, and crystal packing with strong specific protein--protein interactions, not present under physiological …

Inequality, Rubber, And Thermodynamics In Indonesia, Ernest M. Oleksy

The Downtown Review

Intersectionality has led the charge in ensuring that workplace justice is assured to all people, irrespective of their identities. While intersectionality is a useful theory for explaining inequality, what must not be understated is the contributions that postcolonialism and the blue-collar working identity can have on harsh working conditions. Particularly, miners in Indonesia have had to work in very hostile environments where they are at-risk for sulfur poisoning as they mine for materials to vulcanize rubber. This article serves two purposes. The first is to call attention to how place can help explain the differential experiences of miners in the …

Heat And Work, The First Law Of Thermodynamics From The Boltzmann Pov, Carl W. David

Chemistry Education Materials

The First Law of Thermodynamics is discussed in terms of the Boltzmann distribution.

The Legendre Transformation For Beginning Thermodynamics Students, Carl W. David

Chemistry Education Materials

The Legendre Transform, as traditionally taught in introductory Physical Chemistry classes, can be better understood with some simple examples, which are discussed herein.

Removal Of Cu2+ And Ni2+ From Aqueous Solution Using Sno2 Nanomaterial Effect Of: Ph, Time, Temperature, Interfering Cations, Abigail M. Zepeda, Daisy Gonzalez, Luis Gonzalez Heredia, Karina Marquez, Cesar Perez, Erika Pena, K. Flores, Carolina Valdes, Thomas Eubanks, Jason Parsons, J. Cantu

Chemistry Faculty Publications and Presentations

Tin oxide, SnO2, nanomaterial was synthesized and tested for the removal of Cu2+ and Ni2+ ions from aqueous solutions. Various parameters for the binding were investigated in batch studied, which included pH, time, temperature, and interferences. In addition, isotherm studied were performed to determine the maximum binding capacity for both Cu2+ and Ni2+ ions. The optimal binding pH determined from the effects of pH were to be at pH 5 for both the Cu2+ and Ni2+ ions. The isotherm studies were performed at temperatures of 4°C, 25 °C, and 45 °C for both the Cu2+ and Ni2+ ions and were …

Removal Of Chromium(Vi) And Chromium(Iii) Ions From Aqueous Solution Using Bio-Char Generated From Agricultural Waste Products, Diego Fernando Gonzalez

Theses and Dissertations

Heavy metals are one of the most persistent and prevalent contaminants in the aquatic environment. The removal of chromium from aqueous solution, especially in the hexavalent form is difficult. New technologies, techniques and/or new materials have been designed in order to effectively and efficiently remove chromium from the aqueous environment. The project focuses on the comparison of the effects of pH, time, temperature, binding capacity on bio-char’ generated from agricultural waste produces vs an amino modified derivative of the bio-char. Pineapple skins were dried, ground, sieved, and pyrolyzed to produce a bio-char material. The bio-char was analyzed using FTIR to …

Ligand Binding Constants Of The Cucurbit[7]Uril Predicted With Molecular Docking: A Theoretical Study, Balázs Roósz, Tamás Körtvélyesi, Béla Viskolcz

Turkish Journal of Chemistry

A binding stability order predicting, molecular docking based fast technique was developed for host--guest complexes. Molecular descriptors were applied to ligand molecules to make the binding energy based docking scoring functions more efficient and reach the $\pm $0.50 log K unit theoretical precision for predictions. The goal of this work was to model complexes of cucurbit[7]uril (CB7) as a host molecule with different local anesthetics and choline and phosphonium choline molecules. The guest molecules were docked into the cavity of CB7. The binding free energy maps were correlated by Contact, Grid-Based, Hawkins GB/SA, and AMBER docking scores obtained from UCSF …

Mechanistic Insights Into The Reaction Of Chlorination Of Tryptophan Catalyzed By Tryptophan 7-Halogenase., Tatyana Karabencheva-Christova, Juan Torras, Adrian J Mulholland, Alessio Lodola, Christo Christov

Michigan Tech Publications

Tryptophan 7-halogenase catalyzes chlorination of free tryptophan to 7-chlorotryptophan, which is the first step in the antibiotic pyrrolnitrin biosynthesis. Many biologically and pharmaceutically active natural products contain chlorine and thus, an understanding of the mechanism of its introduction into organic molecules is important. Whilst enzyme-catalyzed chlorination is accomplished with ease, it remains a difficult task for the chemists. Therefore, utilizing enzymes in the synthesis of chlorinated organic compounds is important, and providing atomistic mechanistic insights about the reaction mechanism of tryptophan 7-halogenase is vital and timely. In this work, we examined a mechanism for the reaction of tryptophan chlorination, performed …

Remediation Of Trivalent And Hexavalent Chromium Ions From Aqueous Solutions Using Titanium Dioxide Polymorphs, Yvette Cantu

Theses and Dissertations

Three titanium dioxide (TiO2) polymorphs were synthesized and used for the removal of chromium (III) and chromium (VI) from aqueous solutions. Various solution parameters were studied to determine the effects of pH, temperature, time, possible interfering ions, and capacities on the binding of Cr(III) and Cr(VI) to all three polymorphs. pH assays determined the optimum pH for the binding of both Cr(III) and Cr(VI) to each polymorph. Adsorption isotherms determined that the adsorption of Cr(III) was non-spontaneous for the three polymorphs with ΔG values ranging from 6.03 to 12.89 kJ/mol. Furthermore, the binding of Cr(VI) to anatase was also non-spontaneous …

Remediation Of Lead And Copper Ions From Water Solutions Using Transition Metal Sulfides, Jesus M. Cantu Jr.

Theses and Dissertations

Heavy metal contamination in water solutions has been a major concern since many transition metals don’t play a role in any biological function and are actually detrimental to human health. There have been several techniques that have been implemented for the remediation of heavy metal contaminants. For this project, three metal sulfides—Fe7S8, ZnS, TiS 2—were synthesized and studied for their capabilities to remove Pb(II) and Cu(II) from water solutions. Several parameters were investigated to determine the effects of pH, time, temperature, binding capacities, and interfering ions. The room temperature adsorption capacities ranged 6.23–333.3 mg/g for Pb(II) and 1.31–250 mg/g for …

Technical Feasibility Of Selectively Separating Rare Earth Elements By Vapor Phase Extraction And Condensation, Katie Lyons

Graduate Theses & Non-Theses

Experiments were performed to evaluate the technical feasibility of selectively separating selected rare earth halides (bromides and chlorides) using a volatilization and condensation technique. Initially, optimum chloridizing and bromidizing roast parameters were secured in studies performed on reagent grade rare earth oxide samples and subsequently confirmed in tests performed on mineral ore and concentrate samples. The volatilization and condensation experiments were performed by placing the subject rare earth halide samples in an argon-purged multiple-zone tube furnace wherein the temperature profile was controlled to establish separate vaporization and condensation regions. Following each experiment, condensate and solid residue samples were analyzed to …

Stability And Kinetics Of Dna Pseudoknots: Formation Of T∗A•T Base-Triplets And Their Targeting Reactions, Calliste Steffensmeier

Theses & Dissertations

Pseudoknots have been found to play important roles in the biology of RNA. These stem-loop motifs are considered to be very compact and the targeting of their loops with complementary strands is accompanied with lower favorable free energy terms. We used a combination of spectroscopic (UV, CD and fluorescence), calorimetric (DSC, PPC and ITC) and kinetic (SPR) techniques to investigate: 1) Local base-triplet formation in pseudoknots; 2) energetic contributions for the association of pseudoknots with their complementary strands; and 3) the kinetic rates as a function of targeting strand length.

We investigated a set of DNA pseudoknots with sequence: d(TCTCT …

Application Of An Ionic Liquid Column To The Analysis Of Flavor And Fragrance Ingredients, Nicole L. Curto

Seton Hall University Dissertations and Theses (ETDs)

Traditional, polar (polyethylene glycol/wax) stationary phase gas chromatography columns pose challenges for flavor and fragrance analysis particularly in regards to thermal instability at high temperatures, degradation when exposed to water, unchanging selectivity, and relatively short shelf lives. Recently, capillary columns using ionic liquids as stationary phases have become available. Ionic liquid columns offer a potential combination of high polarity and high temperature stability with unique selectivity. An in depth discussion about the history and development of column phase characterization, with specific emphasis on selectivity and polarity, will allow for a critical look at the polarity scale currently employed to characterize …

Thermodynamics Of Short Chain Perfluoroalkanes Adsorbed On The Surfaces Of The Graphite Basal Plane And Mgo (100), Nathaniel Keenan Bass

Doctoral Dissertations

Molecular adsorption of short-chain linear perfluoroalkanes was studied by volumetric isotherm and by molecular dynamics simulation. Isotherms of perfluoroethane, perfluoropropane, and perfluorobutane gas were measured on clean surfaces of the graphite basal plane nanometer-scale cubic magnesium oxide (100). Each system was measured over a range of temperatures, and thermodynamic determinations of the entropies, enthalpies, and heats of adsorption were determined as a result. Potential phase transitions between the surface structures were identified, and the constant-coverage heats of adsorption for each system were determined. Comparisons to molecular dynamics simulations provided guidance in the assignment of phase diagrams, giving insights to the …