Physical Sciences and Mathematics Commons^™

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, …

Formation Of Gaseous Peptide Ions From Electrospray Droplets: Competition Between The Ion Evaporation Mechanism And Charged Residue Mechanism., Elnaz Aliyari, Lars Konermann

Chemistry Publications

The transfer of peptide ions from solution into the gas phase by electrospray ionization (ESI) is an integral component of mass spectrometry (MS)-based proteomics. The mechanisms whereby gaseous peptide ions are released from charged ESI nanodroplets remain unclear. This is in contrast to intact protein ESI, which has been the focus of detailed investigations using molecular dynamics (MD) simulations and other methods. Under acidic liquid chromatography/MS conditions, many peptides carry a solution charge of 3+ or 2+. Because of this pre-existing charge and their relatively small size, prevailing views suggest that peptides follow the ion evaporation mechanism (IEM). The IEM …

Efficient Removal Of Lead Ions From Aqueous Media Using Sustainable Sources On Marine Algae, Hannah Namkoong, Erik Biehler, Gon Namkoong, Tarek M. Abdel-Fattah

Electrical & Computer Engineering Faculty Publications

The goal of this project is to explore a new method to efficiently remove Pb(II) ions from water by processing Undaria pinnatifida into immobilized beads using sodium alginate and calcium chloride. The resulting biosorbent was characterized by Fourier transform infrared spectroscopy (FTIR) and scanning electron microscopy coupled with energy-dispersive X-ray spectroscopy (SEM-EDS). Using immobilized U. pinnatifida, we investigated the effect of various factors on Pb(II) ion removal efficiency such as temperature, pH, ionic strength, time, and underlying biosorption mechanisms. For Pb(II) ion biosorption studies, Pb(II) ion biosorption data were obtained and analyzed using Langmuir and Freundlich adsorption models. It …

Toxic Effects Of Silver Ions On Early Developing Zebrafish Embryos Distinguished From Silver Nanoparticles, Martha S. Johnson, Preeyaporn Songkiatisak, Pavan Kumar Cherukuri, Xiao-Hong Nancy Xu

Chemistry & Biochemistry Faculty Publications

Currently, effects of nanomaterials and their ions, such as silver nanoparticles (Ag NPs) and silver ions (Ag⁺), on living organisms are not yet fully understood. One of the vital questions is whether nanomaterials have distinctive effects on living organisms from any other conventional chemicals (e.g., their ions), owing to their unique physicochemical properties. Due to various experimental protocols, studies of this crucial question have been inconclusive, which hinders rational design of effective regulatory guidelines for safely handling NPs. In this study, we chronically exposed early developing zebrafish embryos (cleavage-stage, 2 hours post-fertilization, hpf) to a dilution series of …

Mobile Protons Limit The Stability Of Salt Bridges In The Gas Phase: Implications For The Structures Of Electrosprayed Protein Ions., Lars Konermann, Elnaz Aliyari, Justin H Lee

Chemistry Publications

Electrosprayed protein ions can retain native-like conformations. The intramolecular contacts that stabilize these compact gas-phase structures remain poorly understood. Recent work has uncovered abundant salt bridges in electrosprayed proteins. Salt bridges are zwitterionic BH⁺/A^- contacts. The low dielectric constant in the vacuum strengthens electrostatic interactions, suggesting that salt bridges could be a key contributor to the retention of compact protein structures. A problem with this assertion is that H⁺ are mobile, such that H⁺ transfer can convert salt bridges into neutral B⁰/HA⁰ contacts. This possible salt bridge annihilation puts into question the …

Sulfolane-Induced Supercharging Of Electrosprayed Salt Clusters: An Experimental/Computational Perspective., Leanne M Martin, Lars Konermann

Chemistry Publications

It is well-known that supercharging agents (SCAs) such as sulfolane enhance the electrospray ionization (ESI) charge states of proteins, although the mechanistic origins of this effect remain contentious. Only very few studies have explored SCA effects on analytes other than proteins or peptides. This work examines how sulfolane affects electrosprayed NaI salt clusters. Such alkali metal halide clusters have played a key role for earlier ESI mechanistic studies, making them interesting targets for supercharging investigations. ESI of aqueous NaI solutions predominantly generated singly charged [Na_nI_(n-1)]⁺ clusters. The addition of sulfolane resulted in abundant …

The Effects Of Increasing Positively Charged Metal Ions Within Synovial Fluid, Kandisi Anyabwile

Williams Honors College, Honors Research Projects

Osteoarthritis is a degenerative joint disease that affects 10% of men and 13% of women over age of 60. It is the degradation of the cartilage between two bones; obesity, age, overuse, or injury are major contributors to the development of this disease. The joint is incapsulated by the synovial sac filled with a viscous solution that aids in lubrication referred to as synovial fluid. If the synovial sac is ruptured due to injury, positive ions (K⁺, Na⁺, Ca²⁺, and Fe³⁺) may affect viscoelastic properties within the sac. The purpose of this …

Gas Phase Protein Folding Triggered By Proton Stripping Generates Inside-Out Structures: A Molecular Dynamics Simulation Study., Alexander I M Sever, Lars Konermann

Chemistry Publications

The properties of electrosprayed protein ions continue to be enigmatic, owing to the absence of high-resolution structure determination methods in the gas phase. There is considerable evidence that under properly optimized conditions these ions preserve solution-like conformations and interactions. However, it is unlikely that these solution-like conformers represent the "intrinsic" structural preferences of gaseous proteins. In an effort to uncover what such intrinsically preferred conformers might look like, we performed molecular dynamics (MD) simulations of gaseous ubiquitin. Our work was inspired by recent gas phase experiments, where highly extended 13+ ubiquitin ions were transformed to compact 3+ species by proton …

Brown Carbon Production By Aqueous-Phase Interactions Of Glyoxal And So2, David O. De Haan, Kevin Jansen, Alec D. Rynaski, W. Ryan P. Sueme, Ashley K. Torkelson, Eric T. Czer, Alexander K. Kim, Michael A. Rafla, Audrey C. De Haan, Margaret A. Tolbert

Chemistry and Biochemistry: Faculty Scholarship

Oxalic acid and sulfate salts are major components of aerosol particles. Here, we explore the potential for their respective precursor species, glyoxal and SO₂, to form atmospheric brown carbon via aqueous-phase reactions in a series of bulk aqueous and flow chamber aerosol experiments. In bulk aqueous solutions, UV- and visible-light-absorbing products are observed at pH 3–4 and 5–6, respectively, with small but detectable yields of hydroxyquinone and polyketone products formed, especially at pH 6. Hydroxymethanesulfonate (HMS), C₂, and C₃ sulfonates are major products detected by electrospray ionization mass spectrometry (ESI-MS) at pH 5. Past studies …

Generation And Reactions Of A Benzodehydrotropylium Ion-Co2(Co)6 Complex, Mariam A. Mehdi, Eric A.C. Bushnell, Sahar Nikoo, James W. Gauld, James R. Green

Chemistry and Biochemistry Publications

A series of 7-methylenedehydrobenzo[7]annulen-5-ol hexacarbonyldicobalt complexes were generated by Hosomi-Sakurai reactions of allylsilanes containing o-alkynylarylaldehyde-Co₂(CO)₆ complexes. One of cyclization products was converted into its corresponding dihydrobenzo[7]annulen-7-ol hexacarbonyldicobalt complex, an immediate precursor to a benzodehydrotropylium-Co₂(CO)₆. The cation was generated in situ and reacted with four nucleophiles, and its aromatic stabilization determined by computational methods.

Collaborative Learning Exercises For Teaching Protein Mass Spectrometry [Post-Print], Michelle Kovarik, Jill K. Robinson

Faculty Scholarship

A collaborative learning module for teaching protein mass spectrometry has been developed to overcome common obstacles to incorporating the modern topic of biological mass spectrometry into the undergraduate chemistry curriculum. Protein mass spectrometry data is provided to eliminate the need for expensive instrumentation, and an instructor’s manual gives necessary details for those unfamiliar with the topic. The first section provides background information on proteins and the field of proteomics. The second section describes the use of electrospray ionization to determine the molecular weight of a protein. The third section shows how to identify a protein using peptide mass mapping, and …

Substrate-Dependent Photoconductivity Dynamics In A High-Efficiency Hybrid Perovskite Alloy, Ali Moeed Tirmzi, Jeffrey A. Christians, Ryan P. Dwyer, David T. Moore, John A. Marohn

Faculty Publications

Films of (FA_0.79MA_0.16Cs_0.05)_0.97Pb(I_0.84Br_0.16)_2.97 were grown over TiO₂, SnO₂, indium tin oxide (ITO), and NiO. Film conductivity was interrogated by measuring the in-phase and out-of-phase forces acting between the film and a charged microcantilever. We followed the films’ conductivity versus time, frequency, light intensity, and temperature (233−312 K). Perovskite conductivity was high and light-independent over ITO and NiO. Over TiO₂ and SnO₂, the conductivity was low in the dark,increased with light intensity, and persisted for 10’s of seconds after the light …

Metallo-Polyelectrolytes As A Class Of Ionic Macromolecules For Functional Materials, Tianyu Zhu, Ye Sha, Jing Yan, Parasmani Pageni, Md Anisur Rahman, Yi Yan, Chuanbing Tang

Faculty Publications

The fields of soft polymers and macromolecular sciences have enjoyed a unique combination of metals and organic frameworks in the name of metallopolymers or organometallic polymers. When metallopolymers carry charged groups, they form a class of metal-containing polyelectrolytes or metallo-polyelectrolytes. This review identifies the unique properties and functions of metallo-polyelectrolytes compared with conventional organo-polyelectrolytes, in the hope of shedding light on the formation of functional materials with intriguing applications and potential benefits. It concludes with a critical perspective on the challenges and hurdles for metallo-polyelectrolytes, especially experimental quantitative analysis and theoretical modeling of ionic binding.

Effect Of Molten Salt Synthesis Processing Duration On The Photo- And Radioluminescence Of Uv- Visible- And X-Ray-Excitable La 2 Hf 2 O 7 :Eu 3+ Nanoparticles, Jose P. Zuniga, Santosh K. Gupta, Maya Abdou, Yuanbing Mao

Chemistry Faculty Publications and Presentations

Ln 3+ -ion-doped nanomaterials possess excellent properties because of their high color purity, longer excited state lifetime, narrow emission, and large Stokes shifts. In this work, we studied the correlation between the luminescence properties of La 2 Hf 2 O 7 :Eu 3+ pyrochlore nanoparticles (NPs) synthesized by a molten salt synthesis (MSS) method at a relatively low temperature and several MSS processing durations (from 1 to 12 h). We synthesized these NPs with different sizes just by changing the MSS processing time without subjecting to high temperature. Raman spectroscopy confirmed the stabilization of the ideal pyrochlore structure of the …

Crown Ether Effects On The Location Of Charge Carriers In Electrospray Droplets: Implications For The Mechanism Of Protein Charging And Supercharging., Haidy Metwally, Lars Konermann

Chemistry Publications

"Native" electrospray ionization (ESI) mass spectrometry (MS) aims to transfer proteins from solution into the gas phase while maintaining solution-like structures and interactions. The ability to control the charge states of protein ions produced in these experiments is of considerable importance. Supercharging agents (SCAs) such as sulfolane greatly elevate charge states without significantly affecting the protein structure in bulk aqueous solution. The origin of native ESI supercharging remains contentious. According to one model, SCAs trigger unfolding within ESI droplets. In contrast, the "charge trapping model" envisions that SCAs impede the ejection of charge carriers (e.g., NH₄⁺ or Na …

Improved Ultraviolet And Infrared Oscillator Strengths For Oh+, James N. Hodges, Dror M. Bittner, Peter F. Bernath

Chemistry & Biochemistry Faculty Publications

Molecular ions are key reaction intermediates in the interstellar medium. OH⁺ plays a central role in the formation of more complex chemical species and for estimating the cosmic ray ionization rate in astrophysical environments. Here, we use a recent analysis of a laboratory spectrum in conjunction with ab initio methods to calculate infrared and ultraviolet oscillator strengths. These new oscillator strengths include branch dependent intensity corrections, arising from the Herman–Wallis effect, that have not been included before. We estimate 10% total uncertainty in the UV and 6% total uncertainty in the IR for the oscillator strengths.

Single-Reference Coupled Cluster Theory For Multi-Reference Problems, Johannes T. Margraf, Ajith Perera, Jesse J. Lutz, Rodney J. Bartlett

Faculty Publications

Coupled cluster (CC) theory is widely accepted as the most accurate and generally applicable approach in quantum chemistry. CC calculations are usually performed with single Slater-determinant references, e.g., canonical Hartree-Fock (HF) wavefunctions, though any single determinant can be used. This is an attractive feature because typical CC calculations are straightforward to apply, as there is no potentially ambiguous user input required. On the other hand, there can be concern that CC approximations give unreliable results when the reference determinant provides a poor description of the system of interest, i.e., when the HF or any other single determinant ground state has …

Molecular Dynamics Simulations On Gas-Phase Proteins With Mobile Protons: Inclusion Of All-Atom Charge Solvation., Lars Konermann

Chemistry Publications

Molecular dynamics (MD) simulations have become a key tool for examining the properties of electrosprayed protein ions. Traditional force fields employ static charges on titratable sites, whereas in reality, protons are highly mobile in gas-phase proteins. Earlier studies tackled this problem by adjusting charge patterns during MD runs. Within those algorithms, proton redistribution was subject to energy minimization, taking into account electrostatic and proton affinity contributions. However, those earlier approaches described (de)protonated moieties as point charges, neglecting charge solvation, which is highly prevalent in the gas phase. Here, we describe a mobile proton algorithm that considers the electrostatic contributions from …

Metal Ion Complexes Of N,N′-Bis(2-Pyridylmethyl)-Trans-1,2-Diaminocyclohexane-N,N′-Diacetic Acid, H2bpcd: Lanthanide(Iii)–Bpcd2– Cationic Complexes, Craig C. Mclauchlan, Jan Florian, Daniel S. Kissel, Albert W. Herlinger

Faculty Publications – Chemistry

The synthesis and characterization of N,N′-bis(2-pyridylmethyl)-trans-1,2-diaminocyclohexane-N,N′-diacetic acid (H2bpcd) cationic complexes of La(III), Nd(III), and Sm(III) are reported. The Ln(III)–bpcd2– complex ions, where bpcd2– stands for N,N′-bis(2-pyridylmethyl)-trans-1,2-diaminocyclohexane-N,N′-diacetate, were isolated as PF6– salts. These salts were characterized by elemental analysis, X-ray crystallography, IR, and 1H and 13C NMR spectroscopy. Binuclear [La2(bpcd)2(H2O)2]2+ crystallized from an aqueous solution in the monoclinic P21/c space group as a cocrystallate with Na2bpcd and NaPF6, nominally Na2.34[La1.22(C22H26N4O4)2(H2O)2][PF6]2·2H2O, with a = 11.3343(6) Å, b = 17.7090(9) Å, c = 15.0567(8) Å, β = 110.632(3)°, and Z = …

The First Potential Energy Surfaces For The C₆Hˉ-H₂ And C₆Hˉ-He Collisional Systems And Their Corresponding Inelastic Cross Sections, Kyle M. Walker, Fabien Dumouchel, François Lique, Richard Dawes

Chemistry Faculty Research & Creative Works

Molecular anions have recently been detected in the interstellar and circumstellar media. Accurate modeling of their abundance requires calculations of collisional data with the most abundant species that are usually He atoms and H₂ molecules. In this paper, we focus on the collisional excitation of the first observed molecular anion, C₆H^-, by He and H₂. Theoretical calculations of collisional cross sections rely generally on ab initio interaction potential energy surfaces (PESs). Hence, we present here the first PESs for the C₆H^--H₂ and C₆H^--He van …

Salt And Water Uptake In Nanocon!Nement Under Applied Electric Field: An Open Ensemble Monte Carlo Study, F. Moucka, D. Bratko, A. Luzar

Chemistry Publications

Permeation of electrolytes in nanoporous materials underlies many applications in energy and materials technologies. Wetting of apolar nanopores can be enhanced by electric !eld, attracting water and ions from unperturbed electrolyte bath. We study absorption of water and NaCl in the pores by Expanded Ensemble Grand Canonical Monte Carlo simulation, which implements particle insertions and deletions through incremental changes in particles’ coupling with the system. We determine the uptake of water and ions in the pores, and concomitant changes in pore thermodynamics, as functions of !eld strength in the pore and salinity in the external bath. Pressure increase and reduction …

K-Shell X-Ray Spectroscopy Of Atomic Nitrogen, M. M. Sant'anna, Gunnar Ohrwall, Wayne C. Stolte, Alfred S. Schlachter, Dennis W. Lindle, B. M. Mclaughlin

Chemistry and Biochemistry Faculty Research

Absolute K-shell photoionization cross sections for atomic nitrogen have been obtained from both experiment and state-of-the-art theoretical techniques. Because of the difficulty of creating a target of neutral atomic nitrogen, no high-resolution K-edge spectroscopy measurements have been reported for this important atom. Interplay between theory and experiment enabled identification and characterization of the strong 1s → np resonance features throughout the threshold region. An experimental value of 409.64 ± 0.02 eV was determined for the K-shell binding energy.

Jahn-Teller Coupling And Fragmentation After Core-Shell Excitation Ini Cf4 Investigated By Partial-Ion-Yield Spectroscopy, Renaud Guillemin, Wayne C. Stolte, Maria Novella Piancastelli, Dennis W. Lindle

Chemistry and Biochemistry Faculty Research

We investigate fragmentation processes induced by core-level photoexcitation in CF4 at both the carbon and fluorine K edges by means of partial-ion-yield spectroscopy. The molecule CF₄ is a textbook example of systems in which Jahn-Teller coupling strongly manifests itself in the photoabsorption spectrum. Spectral features related to Jahn-Teller and quasi-Jahn-Teller splitting are observed, and important differences in the fragmentation pathways are revealed depending on the symmetries of the core-excited states. We interpret these experimental observations on the grounds of symmetry lowering from the Td to the C3v point group as well as preferential orientation with respect …

Multiphoton Ionization Of Nitrobenzene In Non-Aqueous Solutions: Characterization Of The Cation And Ion-Molecule Chemistry, G. Siuzdak, J. J. Belbruno

Dartmouth Scholarship

The phenoxy cation has been generated in polar and nonpolar solutions by multiphoton ionization of nitrobenzene using nanosecond pulses of 266 nm and 355 nm light. The ions have been characterized by pulsed conductivity (ion mobility) measurements and transient absorption spectroscopy. The involvement of the phenoxy ion in ion-molecule chemistry with either neutral solute or solvent molecules has also been observed and the photochemical products and quantum yields of the ion-molecule products are presented and compared with the neutral photochemistry results.

Coordination Compounds And Complex Ions, Carole Nelson

Honors Theses

Coordination compounds and complex ions are an important and practical part of fundamental chemistry. Their composition and formation should be understood by a chemistry student.

A Study Of The Hydrolysis Of P-Bromoacetanilide, Franklyn Miller

Chemistry Honors Papers

This 24 page thesis examines reactions in the fields of organic and physical chemistry.

Pyro-Sulfate Ion In Solution, Geo. Glockler, R. I. Meland

Journal of the Minnesota Academy of Science

No abstract provided.

A Study Of The Products Of The Reaction Between Stannous And Arsenate Ions In Silicic Acid Gels, Frank K. Thompson

University of the Pacific Theses and Dissertations

The fact that characteristic crystalline products result upon the diffusion of arsenate ions into silicic acid gel which has been impregnated with stannous ions has been known by the Pacific Chemistry Department for some time. The optimum conditions with regards to heat and hydrogen ion concentration have been determined. The purpose of this investigation was to study the products of the reaction. First to determine whether or not the silicic acid itself combined with the stannous and arsenate. ions in the formation of the crystalline product, and second to determine its chemical composition.

Potentiometric Titration, S. Lillian Kern

Chemistry Honors Papers

This 27 page thesis contains a general description of the theory and technique of potentiometric titrations.

Reactions Between The Stannous And Arsenate Ions In Silicic Acid Gels, Willard Merle Farr

University of the Pacific Theses and Dissertations

Observation of crystal growths resulting from the chemical interaction of stannous chloride and sodium arsenate in silicic acid gels revealed the following very interesting fact. Gels identical in every respect except acidity, contained crystal growths varying greatly in appearance.

The purpose of this investigation was, therefore, to allow stannous and arsenate ion to combine in a series of accurately prepared gels, identical in all respects except the acid content, and to observe the effect upon crystal growth of: (1) varying the acid concentration; and (2) varying the kind of acid