Chemistry Commons^™

Beyond Cell Penetrating Peptides: Designed Molecular Transporters, P. A. Wender, Christina B. Cooley, E. I. Geihe

Christina B Cooley

Inspired originally by peptides that traverse biological barriers, research on molecular transporters has since identified the key structural requirements that govern cellular entry, leading to new, significantly more effective and more readily available agents. These new drug delivery systems enable or enhance cellular and tissue uptake, can be targeted and provide numerous additional advantages of significance in imaging, diagnostics and therapy.

Broadly Applicable Methodology For The Rapid And Dosable Small Molecule-Mediated Regulation Of Transcription Factors In Human Cells, M. D. Shoulders, L. M. Ryno, Christina B. Cooley, J. W. Kelly, R. L. Wiseman

Christina B Cooley

Direct and selective small molecule control of transcription factor activity is an appealing avenue for elucidating the cell biology mediated by transcriptional programs. However, pharmacologic tools to modulate transcription factor activity are scarce because transcription factors are not readily amenable to small molecule-mediated regulation. Moreover, existing genetic approaches to regulate transcription factors often lead to high nonphysiologic levels of transcriptional activation that significantly impair our ability to understand the functional implications of transcription factor activity. Herein, we demonstrate that small molecule-mediated conformational control of protein degradation is a generally applicable, chemical biological methodology to obtain small molecule-regulated transcription factors that …

Fluorogenic Atom Transfer Radical Polymerization In Aqueous Media As A Strategy For Detection, Zachary T. Allen, Jemima R. Sackey-Addo, Madeline P. Hopps, Danyal Tahseen, Joseph T. Anderson, Tyler A. Graf, Christina B. Cooley

Christina B Cooley

The development of novel approaches to signal amplification in aqueous media could enable new diagnostic platforms for the detection of water-soluble analytes, including biomolecules. This paper describes a fluorogenic polymerization approach to amplify initiator signal by the detection of visible fluorescence upon polymerization in real-time. Fluorogenic monomers were synthesized and co-polymerized by atom transfer radical polymerization (ATRP) in water to reveal increasing polymer fluorescence as a function of both reaction time and initiator concentration. Optimization of the fluorogenic ATRP reaction conditions allowed for the quantitative detection of a small-molecule initiator as a model analyte over a broad linear concentration range …

Designed Guanidinium-Rich Amphipathic Oligocarbonate Molecular Transporters Complex, Deliver And Release Sirna In Cells, E. I. Geihe, Christina B. Cooley, J. R. Simon, M. K. Kiesewetter, J. A. Edward, R. P. Hickerson, R. L. Kaspar, J. L. Hedrick, R. M. Waymouth, P. A. Wender

Christina B Cooley

The polyanionic nature of oligonucleotides and their enzymatic degradation present challenges for the use of siRNA in research and therapy; among the most notable of these is clinically relevant delivery into cells. To address this problem, we designed and synthesized the first members of a new class of guanidinium-rich amphipathic oligocarbonates that noncovalently complex, deliver, and release siRNA in cells, resulting in robust knockdown of target protein synthesis in vitro as determined using a dual-reporter system. The organocatalytic oligomerization used to synthesize these co-oligomers is step-economical and broadly tunable, affording an exceptionally quick strategy to explore chemical space for optimal …

Oligocarbonate Molecular Transporters: Oligomerization-Based Syntheses And Cell-Penetrating Studies, Christina B. Cooley, B. M. Trantow, F. Nederberg, M. K. Kiesewetter, J. L. Hedrick, R. M. Waymouth, P. A. Wender

Christina B Cooley

A new family of guanidinium-rich molecular transporters featuring a novel oligocarbonate backbone with 1,7-side chain spacing is described. Conjugates can be rapidly assembled irrespective of length in a one-step oligomerization strategy that can proceed with concomitant introduction of probes (or by analogy drugs). The new transporters exhibit excellent cellular entry as determined by flow cytometry and fluorescence microscopy, and the functionality of their drug delivery capabilities was confirmed by the delivery of the bioluminescent small molecule probe luciferin and turnover by its intracellular target enzyme.

Developmental Changes In Pedunculopontine Nucleus (Ppn) Neurons, T. Kobayashi, C. Good, J. Biedermann, Christina B. Cooley, R. D. Skinner, E. E. García-Rill

Christina B Cooley

The developmental decrease in rapid-eye-movement (REM) sleep in man occurs between birth and after puberty. We hypothesize that if this decrease in REM sleep does not occur, lifelong increases in REM sleep drive may ensue. Such disorders are characterized by hypervigilance and sensory-gating deficits, such as are present in postpubertal onset disorders like schizophrenia, panic attacks (a form of anxiety disorder), and depression. The decrease in REM sleep in the rat occurs between 10 and 30 days of age. We studied changes in size and physiological properties of pedunculopontine nucleus (PPN) cells involved in the control of arousal, i.e., waking …

Application Of The Picoloyl Substituent In Carbohydrate Chemistry, Michael Mannino, Alexei V. Demchenko

Michael Mannino

Recycling Aluminum, Steffani Burwitz, Kristin M. Roe, Matthew L. Miller, Madhav P. Nepal, Larry B. Browning, P. Troy White

Madhav Nepal

Students will investigate and compare the energy cost to produce aluminum products from aluminum ore and recycled aluminum. Students will perform an electrolysis activity to reinforce the idea that recycling metal requires less energy than mining and refining metals from their original source in the earth.

Synthesis And Evaluation Of Novel Silica Hydride-Based Stationary Phases For Bioanalytical Application, Seiichiro Watanabe

Seiichiro Watanabe

Structural Evidence For Consecutive Hel308-Like Modules In The Spliceosomal Atpase Brr2, L. Zhang, T. Xu, Corina Maeder, L.-O. Bud, J. Shanks, J. Nix, C. Guthrie, J. A. Pleiss, R. Zhao

Corina Maeder

Brr2 is a DExD/H-box helicase responsible for U4/U6 unwinding during spliceosomal activation. Brr2 contains two helicase-like domains, each of which is followed by a Sec63 domain with unknown function. We determined the crystal structure of the second Sec63 domain, which unexpectedly resembles domains 4 and 5 of DNA helicase Hel308. This, together with sequence similarities between Brr2's helicase-like domains and domains 1-3 of Hel308, led us to hypothesize that Brr2 contains two consecutive Hel308-like modules (Hel308-I and Hel308-II). Our structural model and mutagenesis data suggest that Brr2 shares a similar helicase mechanism with Hel308. We demonstrate that Hel308-II interacts with …

Conformational Dynamics Of Single Pre-Mrna Molecules During In Vitro Splicing, J. Abelson, M. Blanco, M. A. Ditzler, F. Fuller, P. Aravamudhan, M. Wood, T. Villa, D. E. Ryan, J. A. Pleiss, Corina Maeder, C. Guthrie

Corina Maeder

The spliceosome is a complex small nuclear RNA (snRNA)-protein machine that removes introns from pre-mRNAs via two successive phosphoryl transfer reactions. The chemical steps are isoenergetic, yet splicing requires at least eight RNA-dependent ATPases responsible for substantial conformational rearrangements. To comprehensively monitor pre-mRNA conformational dynamics, we developed a strategy for single-molecule FRET (smFRET) that uses a small, efficiently spliced yeast pre-mRNA, Ubc4, in which donor and acceptor fluorophores are placed in the exons adjacent to the 5′ and 3′ splice sites. During splicing in vitro, we observed a multitude of generally reversible time-and ATP-dependent conformational transitions of individual pre-mRNAs. The …

Factors Affecting The Association Of Single- And Double-Stranded Rnas With Montmorillonite Nanoclays, A. Gujjari, B. V. Rodriguez, J. Pescador, Corina Maeder, G. W. Beall, L. K. Lewis

Corina Maeder

Montmorillonite (MMT) nanoclays exist as single and stacked sheet-like structures with large surface areas that can form stable associations with many naturally occurring biomolecules, including nucleic acids. They have been utilized successfully as vehicles for delivery of both drugs and genes into cells. Most previous studies have focused on interactions of MMT with DNA. In the current study, we have investigated the binding of small RNAs similar to those used for RNA interference (RNAi) therapy to two major forms of the clay, Na-MMT and Ca-MMT. Association of both forms of MMT with several double-stranded RNAs (dsRNAs), including 25mers, 54mers and …

Improving Information Literacy Through Wikipedia Editing In The Chemistry Classroom: Lessons Learned, Ye Li, Charity Flener Lovitt, Anne J. Mcneil, Kristen S. Shuyler

Kristen S. Shuyler

Assignments in which students edit Wikipedia may help students learn about the complexities of information creation and production, while engaging them in researching and writing about topics related to class content. This chapter presents two case studies that illustrate how Wikipedia-based activities can be designed to achieve both chemistry and information literacy learning outcomes. In both examples, faculty partnered with a librarian to implement the Wikipedia editing assignments. Through these experiences, those involved learned about Wikipedia and its community, and identified promising practices for project requirements based on formal and informal assessment and observations. Reflections are offered on the value …

Teaching Climate Change Concepts And The Nature Of Science: A Library Activity To Identify Sources Of Climate Change Misconceptions, Charity Flener Lovitt, Kristen S. Shuyler

Kristen S. Shuyler

A library activity was developed in which students found information about climate science misconceptions from popular and scientific literatures. As part of the activity, students developed a rubric to evaluate the credibility and type of literature sources they found. The activity prepared students to produce an annotated bibliography of articles, which they then used to create a training document about a climate science misconception for staff at a local science center. Evaluation of annotated bibliographies showed that students were able to distinguish between popular and scholarly literature but struggled to identify primary and secondary sources within the scholarly literature. In …

Conformational Dynamics Of The Hiv-Vif Protein Complex, K. Aurelia Ball, Lieza Chan, David J. Stanley, Elise Tierney, Sampriti Thapa, Hai M. Ta, Lily Burton, Jennifer M. Binning, Matthew P. Jacobson, John D. Gross

K. Aurelia Ball

Human immunodeficiency virus-1 viral infectivity factor (Vif) is an intrinsically disordered protein responsible for the ubiquitination of the APOBEC3 (A3) antiviral proteins. Vif folds when it binds Cullin-RING E3 ligase 5 and the transcription cofactor CBF- β. A five-protein complex containing the substrate receptor (Vif, CBF- β, Elongin-B, Elongin-C (VCBC)) and Cullin5 (CUL5) has a published crystal structure, but dynamics of this VCBC-CUL5 complex have not been characterized. Here, we use molecular dynamics (MD) simulations and NMR to characterize the dynamics of the VCBC complex with and without CUL5 and an A3 protein bound. Our simulations show that the VCBC …

Effects Of Disorder On Thermoelectric Properties Of Semiconducting Polymers, Zlatan Aksamija, Dhandapani Venkataraman, Connor J. Boyle, Meenakshi Upadhyaya

Zlatan Aksamija

Iron(Ii) Complexes Of Di­Methyl­Tri­Aza­Cyclo­Phane, Wei-Tsung Less, Matthias Zeller, David Upp, Yuliya Politanska, Doug Steinman, Talal Al-Assil, Daniel P. Becker Ph.D.

Wei-Tsung Lee

Treatment of the ortho-tri­aza­cyclo­phane 1,4-di­methyl­tribenzo[b,e,h][1,4,7]tri­aza­cyclo­nona-2,5,8-triene [(C₆H₅)₃(NH)(NCH₃)₂, L1] with Fe[N(SiMe₃)₂]₂ yields the dimeric iron(II) complex bis­(μ-1,4-di­methyl­tribenzo[b,e,h][1,4,7]tri­aza­cyclo­nona-2,5,8-trien-7-ido)bis­[(μ-1,4-di­methyl­tribenzo[b,e,h][1,4,7]tri­aza­cyclo­nona-2,5,8-trien-7-ido)iron(II)], [Fe(C₂₀H₁₈N₃)₄] or Fe₂(L1)₄ (9). Dissolution of 9 in tetra­hydro­furan (THF) results in solvation by two THF ligands and the formation of a simpler monoiron complex, namely bis­(μ-1,4-di­methyl­tribenzo[b,e,h][1,4,7]tri­aza­cyclo­nona-2,5,8-trien-7-ido-κN^{7 …}

Scale Up Isolation Of Aaptamine For In Vivo Evaluation Indicates Its Neurobiological Activity Is Linked To The Delta Opioid Receptor, Nicole L. Mcintosh, Eptisam Lambo, Laura Millan-Lobo, Fei Li, Li He, Phillip Crews, Jennifer L. Whistler, Tyler Johnson

Tyler Johnson

Opioid receptors belong to the large superfamily of seven transmembrane-spanning (7TM) G protein-coupled receptors (GPCRs). As a class, GPCRs are of fundamental physiological importance mediating the actions of the majority of known neurotransmitters and hormones. The Mu, Delta, and Kappa (MOP, DOP, KOP) opioid receptors are particularly intriguing members of this receptor family as they are the targets involved in many neurobiological diseases such as addiction, pain, stress, anxiety, and depression. Recently we discovered that the aaptamine class of marine sponge derived natural products exhibit selective agonist activity in vitro for the DOP versus MOP receptor. Our findings may explain …

Synthesis, Molecular Structure, And 1h Nmr Analysis Of Bis(Tetraphenylcyclopentadienyl)Ruthenium(Ii), Michael P. Castellani, John M. Wright, Steven J. Gelb, Arnold L. Rheingold, William C. Trogler

Michael P. Castellani

Reaction of [Ru(p-cymene)Cl₂]₂ with K(η⁵-C₅HPh₄) in refluxing diglyme yields (η⁵-C₅Ph₄)₂Ru in ca 50% yield. The complex was not susceptible to oxidation or reduction. (C₅HPH₄)₂Ru crystallizes in the triclinic P1 space group with a = 8.549(4), b = 10.793(4), c = 12.842(5) Å, α = 65.98(3), β = 73.10(3), γ = 83.49(3)° and Z = 1. The least-squares data refined to R(F) = 3.53% and R(wF = 3.82% for the …

(Η5‐Cyclopentadienyl)Tricarbonylmanganese(I) Complexes, Patrick N. Kirk, Michael P. Castellani

Michael P. Castellani

Since the initial preparation of (η⁵‐C₅H₅)Mn(CO)₃ by Fischer and Jira in 1954, many methods have been developed for the synthesis of this compound (often referred to as “cymantrene”) and its C₅ substituted derivatives. Interestingly, each of these preparations has at least one significant drawback from a preparative perspective (thallium reagents, high pressures, poor yields, or reactants that require significant preparative investment). Surprisingly missing from this collection of preparative methods is the direct reaction between commercially available Mn(CO)₅Br and NaC₅H₅. In 1988, however, Smart and coworkers found …

Biosensor Applications Of Electrodeposited Nanostructures, Keith Stine

Keith Stine

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Information Literacy For Chemistry In The Real World, Alyssa H. Valcourt

Alyssa H. Valcourt

No abstract provided.

Synthetic Ionophores As Non-Resistant Antibiotic Adjuvants, George Gokel, Mohit B. Patel, Evan C. Garrad, Joseph W. Meisel, Saeedeh Negin, Michael R. Gokel

George Gokel

Optimization Of Magnetic Powdered Activated Carbon For Aqueous Hg(Ii) Removal And Magnetic Recovery, Emily K. Faulconer, Natalia Hoogesteijn Von Reitzenstein, David W. Mazyck

Emily Faulconer

Activated carbon is known to adsorb aqueous Hg(II). MPAC (magnetic powdered activated carbon) has the potential to remove aqueous Hg to less than 0.2 mg/L while being magnetically recoverable. Magnetic recapture allows simple sorbent separation from the waste stream while an isolated waste potentially allows for mercury recycling. MPAC Hg-removal performance is verified by mercury mass balance, calculated by quantifying adsorbed, volatilized, and residual aqueous mercury. The batch reactor contained a sealed mercury-carbon contact chamber with mixing and constant N₂(g) headspace flow to an oxidizingtrap. Mercury adsorption was performed using spiked ultrapure water (100 mg/L Hg). Mercury concentrations …

Call For Abstracts - Resrb 2019, July 8-9, Wrocław, Poland, Wojciech M. Budzianowski

Wojciech Budzianowski

No abstract provided.

Lipg A Bifunctional Phospholipase/Thioesterase Involved In Mycobacterial Envelope Remodeling, Christopher Spilling, Pierre Santucci, Vanessa Point, Isabelle Poncin, Alexandre Guy, Celine Crauste, Carole Serveau-Avesque, Jean M. Galano, Jean-Francois Cavalier, Stephane Canaan

Christopher Spilling

Novel Dna Origami Based Lateral Flow Assay Development, Adrienne Walker

Adrienne Walker

Generating High-Order Optical And Spin Harmonics From Ferromagnetic Monolayers, G.P. Zhang, M.S. Si, M. Murakami, Y.H. Bai, Thomas F. George

Thomas George

Concentration Of Atmospheric Ammonia From Kenyon College Monitoring Station, Vivian Ezeh, David Heithaus, Simon Garcia, Matthew F. Rouhier

Simon Garcia

Kenyon College is hosting an ammonia (NH3) monitoring station as part of the National Atmospheric Deposition Program (NADP). The Kenyon College (OH32) site is one of six locations around the state of Ohio.