School of Chemistry - Research Publications
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ItemA Census of Hsp70-Mediated Proteome Solubility Changes upon Recovery from Heat Stress(AMER CHEMICAL SOC, 2022-05-06)Eukaryotic cells respond to heat shock through several regulatory processes including upregulation of stress responsive chaperones and reversible shutdown of cellular activities through formation of protein assemblies. However, the underlying regulatory mechanisms of the recovery of these heat-induced protein assemblies remain largely elusive. Here, we measured the proteome abundance and solubility changes during recovery from heat shock in the mouse Neuro2a cell line. We found that prefoldins and translation machinery are rapidly down-regulated as the first step in the heat shock response. Analysis of proteome solubility reveals that a rapid mobilization of protein quality control machineries, along with changes in cellular energy metabolism, translational activity, and actin cytoskeleton are fundamental to the early stress responses. In contrast, longer term adaptation to stress involves renewal of core cellular components. Inhibition of the Hsp70 family, pivotal for the heat shock response, selectively and negatively affects the ribosomal machinery and delays the solubility recovery of many nuclear proteins. ProteomeXchange: PXD030069.
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ItemNo Preview AvailableWidespread remodeling of proteome solubility in response to different protein homeostasis stresses(National Academy of Sciences, 2020-02-04)The accumulation of protein deposits in neurodegenerative diseases has been hypothesized to depend on a metastable subproteome vulnerable to aggregation. To investigate this phenomenon and the mechanisms that regulate it, we measured the solubility of the proteome in the mouse Neuro2a cell line under six different protein homeostasis stresses: 1) Huntington’s disease proteotoxicity, 2) Hsp70, 3) Hsp90, 4) proteasome, 5) endoplasmic reticulum (ER)-mediated folding inhibition, and 6) oxidative stress. Overall, we found that about one-fifth of the proteome changed solubility with almost all of the increases in insolubility were counteracted by increases in solubility of other proteins. Each stress directed a highly specific pattern of change, which reflected the remodeling of protein complexes involved in adaptation to perturbation, most notably, stress granule (SG) proteins, which responded differently to different stresses. These results indicate that the protein homeostasis system is organized in a modular manner and aggregation patterns were not correlated with protein folding stability (ΔG). Instead, distinct cellular mechanisms regulate assembly patterns of multiple classes of protein complexes under different stress conditions.
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ItemProtein painting reveals pervasive remodeling of conserved proteostasis machinery in response to pharmacological stimuli(NATURE PORTFOLIO, 2022-11-28)The correct spatio-temporal organization of the proteome is essential for cellular homeostasis. However, a detailed mechanistic understanding of this organization and how it is altered in response to external stimuli in the intact cellular environment is as-yet unrealized. 'Protein painting methods provide a means to address this gap in knowledge by monitoring the conformational status of proteins within cells at the proteome-wide scale. Here, we demonstrate the ability of a protein painting method employing tetraphenylethene maleimide (TPE-MI) to reveal proteome network remodeling in whole cells in response to a cohort of commonly used pharmacological stimuli of varying specificity. We report specific, albeit heterogeneous, responses to individual stimuli that coalesce on a conserved set of core cellular machineries. This work expands our understanding of proteome conformational remodeling in response to cellular stimuli, and provides a blueprint for assessing how these conformational changes may contribute to disorders characterized by proteostasis imbalance.
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ItemTrace residue identification, characterization, and longitudinal monitoring of the novel synthetic opioid beta-U10, from discarded drug paraphernalia(WILEY, 2022-05-23)Empirical data regarding dynamic alterations in illicit drug supply markets in response to the COVID-19 pandemic, including the potential for introduction of novel drug substances and/or increased poly-drug combination use at the "street" level, that is, directly proximal to the point of consumption, are currently lacking. Here, a high-throughput strategy employing ambient ionization-mass spectrometry is described for the trace residue identification, characterization, and longitudinal monitoring of illicit drug substances found within >6,600 discarded drug paraphernalia (DDP) samples collected during a pilot study of an early warning system for illicit drug use in Melbourne, Australia from August 2020 to February 2021, while significant COVID-19 lockdown conditions were imposed. The utility of this approach is demonstrated for the de novo identification and structural characterization of β-U10, a previously unreported naphthamide analog within the "U-series" of synthetic opioid drugs, including differentiation from its α-U10 isomer without need for sample preparation or chromatographic separation prior to analysis. Notably, β-U10 was observed with 23 other drug substances, most commonly in temporally distinct clusters with heroin, etizolam, and diphenhydramine, and in a total of 182 different poly-drug combinations. Longitudinal monitoring of the number and weekly "average signal intensity" (ASI) values of identified substances, developed here as a semi-quantitative proxy indicator of changes in availability, relative purity and compositions of street level drug samples, revealed that increases in the number of identifications and ASI for β-U10 and etizolam coincided with a 50% decrease in the number of positive detections and an order of magnitude decrease in the ASI for heroin.
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ItemNo Preview AvailableWhy does the synthesis of N-phenylbenzamide from benzenesulfinate and phenylisocyanate via the palladium-mediated Extrusion–Insertion pathway not work? A mechanistic exploration(CSIRO Publishing, 2022)The gas-phase extrusion–insertion (ExIn) reactions of the palladium complexes [(phen)nPd (O2SC6H5)]+ (phen = 1,10-phenanthroline, n = 1 or 2), were investigated in the gas phase by multistage mass spectrometry (MSn) experiments consisting of electrospray ionisation and a linear ion trap combined with density functional theory (DFT) calculations. Desulfination of palladium sulfinate cations under collision-induced dissociation (CID) generates the organopalladium intermediates [(phen)nPd(C6H5)]+. Of these two organometallic cations, only [(phen)Pd(C6H5)]+ reacts with phenyl isocyanate via insertion to yield [(phen)Pd(NPhC(O)C6H5)]+. The formation of a coordinated amidate anion is supported by DFT calculations. In exploring this reactivity in the solution phase, we found that heating a mixture of benzenesulfinic acid, phenylisocyanate and palladium trifluoroacetate under a range of different conditions (ligand free versus with ligand, different solvents, addition of acid or base) failed to lead to the formation N-phenyl-benzamide in all cases. Instead, biphenyl was formed and could be isolated in a yield of 46%. DFT calculations using a solvent continuum reveal that the barrier associated with the insertion reaction lies above the competing sequential reactions of desulfination of a second phenyl sulfinate followed by reductive elimination of biphenyl.
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ItemMixed valency in a neutral 1D Fe-chloranilate coordination polymer(ROYAL SOC CHEMISTRY, 2022-06-07)The syntheses and structures of a pair of neutral one-dimensional (1D) Fe-anilate based coordination polymers, Fe(Fan)(4,4'-bipy)2 (Fann- = deprotonated 3,6-difluoro-2,5-dihydroxy-1,4-benzoquinone; 4,4'-bipy = 4,4'-bipyridine) and Fe(Clan)(OPPh3)2 (Clann- = deprotonated 3,6-dichloro-2,5-dihydroxy-1,4-benzoquinone; OPPh3 = triphenylphosphine oxide), are reported. In the case of Fe(Fan)(4,4'-bipy)2, the Fe centre is in the +2 oxidation state and the Fan ligand is present in its quinoidal, dianionic form. In contrast, the structurally similar Fe(Clan)(OPPh3)2 chain contains Fe centres and chloranilate ligands in oxidation states close to +3 and -3 respectively at low temperature. It is suggested that intrachain π-π interactions aid electron transfer from the Fe centres to the bridging ligands.
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ItemMultifunctional Coordination Polymer Exhibiting Reversible Mechanical Motion Allowing Selective Uptake of Guests and Leading to Enhanced Electrical Conductivity(AMER CHEMICAL SOC, 2021-08-24)A remarkably flexible, multifunctional, 2D coordination polymer exhibiting an unprecedented mode of reversible mechanical motion, enabling pores to open and close, is reported. Such multifunctional materials are highly sought after, owing to the potential to exploit coexisting electronic and mechanical functionalities that underpin useful technological applications such as actuators and ultrasensitive detectors. The coordination polymer, of composition Mn(F4TCNQ)(py)2 (F4TCNQ = 2,3,5,6-tetrafluoro-7,7,8,8-tetracycanoquinodimethane; py = pyridine), consists of Mn(II) centers bridged by F4TCNQ dianions and coordinated by py molecules that extend above and below the 2D network. Exposure of Mn(F4TCNQ)(py)2, in its collapsed state, to carbon dioxide results in a pore-opening process at a threshold pressure for a given temperature. In addition to carbon dioxide, a variety of volatile guests may be incorporated into the pores, which are lined with electron-rich F4TCNQ dianions. The inclusion of electron-deficient guests such as 1,4-benzoquinone, nitrobenzene, maleic anhydride, and iodine into the pores is accompanied by a striking color change associated with a new host-guest charge-transfer interaction and an improvement in the semiconductor behavior, with the iodine adduct showing an increase in conductivity of almost 5 orders of magnitude. Experimental and density functional theory calculations on this remarkable multifunctional material demonstrate a reduction in the optical band gap with increasing electron affinity of the guest.
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ItemA new fluorone-based bridging ligand for discrete and polymeric assemblies including Mo and W based [4+4] metallocycles(Royal Society of Chemistry, 2020-07-21)Redox-active ligands are of interest for their ability to link metal centres and generate electroactive materials. We report the synthesis of 9-hydrogen-2,3,7-trihydroxyfluorone, which is able to serve as a bridging ligand and has the potential to exist in multiple oxidation states. Anionic [4+4] metallocycles in which Mo or W centres are linked by the trianion of this ligand are also described.
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ItemThe elusive crystals of calcium acetate hemihydrate: chiral rods linked by parallel hydrophilic strips(Royal Society of Chemistry, 2021-01-21)Calcium acetate hemihydrate is found in the efflorescent salts that form on pottery and other calcareous heritage artefacts. The formation of these salts can lead to deterioration of these objects. A recent analysis of the structure of Ca(OAc)2·½H2O by X-ray powder diffraction (XRPD) has revealed it has a remarkable and surprisingly complex structure. Although the compound usually exists in powder or microcrystalline form, often in mixtures with other salts, we have serendipitously managed to grow crystals of a size suitable for single crystal X-ray diffraction. Our single crystal data show the structure is based on infinite supramolecular polymeric rods that are chiral. Each rod has a minimum diameter of 1.75 nm and the external surface of each rod features four parallel, hydrophobic domains separated by hydrophilic strips. Each hydrophilic strip consists of acetate oxygen atoms and coordinated water molecules that are able to form hydrogen bonding interactions with symmetry-related strips on a neighbouring rod in an arrangement that resembles a zipper. Within the extended crystal structure each rod is bound to four rods of opposite handedness to give a racemic mixture.
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ItemInducing Structural Diversity in Anionic Metal-Tetraoxolene Coordination Polymers Using Templating Methyl Viologen Countercations(AMER CHEMICAL SOC, 2022-01-18)Controlling the connectivity of coordination polymers is an important scientific goal, as the physicochemical properties of these compounds are often intimately linked to the network topology. Using redox-active methyl viologen (MeV2+) countercations, a series of one-, two-, and three-dimensional anionic coordination polymers are described in which MnII or CdII centers are bridged with tetraoxolene ligands derived from 3,6-dihalo-2,5-dihydroxy-1,4-benzoquinone (H2Xan, X = F, Cl). Using MeV2+ countercations and either MnII or CdII yields nonporous anionic diamond networks of the general composition (MeV)[M(Clan)2] in which eight-coordinate divalent metal centers are linked by Clan2- ligands. Changing the solvent mixture from acetone/water to acetonitrile/water (MeCN/H2O) afforded the same product in the case of CdII, but an anionic 2D honeycomb network with the composition (MeV)[Mn2(Clan)3]·6MeCN was obtained in the case of MnII. In contrast, the use of Fan2- ligands affords 1D ladder-type anionic coordination polymers (MeV)[M2(Fan)3(H2O)2] (M = MnII, CdII) despite the chemical and structural similarity of Fan2- and Clan2- ligands. In the case of the diamond and 2D networks, MeV2+ countercations play a key structural role, arising from C-H···O hydrogen bonding extending from the cation to the anionic network. For the 1D ladder-type structures formed with Fan2-, O-H···O hydrogen bonding between anionic [M2(Fan)3(H2O)2]2- ladders is largely responsible for directing the crystal packing. For these compounds, MeV2+ cations play a more nuanced structural role, only occupying the void space between layers of H-bonded anionic [M2(Fan)3(H2O)2]2- ladders.