School of Chemistry - Research Publications
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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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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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ItemSemi-conducting mixed-valent X(4)TCNQ(I-/II-)(X = H, F) charge-transfer complexes with C6H2(NH2)(4)(Royal Society of Chemistry, 2020-07-21)We report further characterisation on the previously described [C6H2(NH2)4][TCNQ] charge-transfer (CT) complex. An in-depth analysis of the crystallographic data aided by spectroscopic methods indicates the compound is mixed-valent with TCNQI−/II− species. The analogous F4TCNQ CT complex has been synthesised and spectroscopic methods suggest that [C6H2(NH2)4][F4TCNQ] is also mixed-valent. Electrical conductivity measurements on both complexes indicate semi-conductor behaviour, with [C6H2(NH2)4][TCNQ] exhibiting a σ300K = 9.8 × 10−4 S cm−1 and an Ea = 0.10(1) eV. Density functional theory studies on both CT complexes reveal band structures suggestive of ambipolar transport, with a super-exchange mechanism.
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ItemOxidative damage of proline residues by nitrate radicals (NO3): a kinetic and product study(ROYAL SOC CHEMISTRY, 2020-09-21)Tertiary amides, such as in N-acylated proline or N-methyl glycine residues, react rapidly with nitrate radicals (NO3˙) with absolute rate coefficients in the range of 4-7 × 108 M-1 s-1 in acetonitrile. The major pathway proceeds through oxidative electron transfer (ET) at nitrogen, whereas hydrogen abstraction is only a minor contributor under these conditions. However, steric hindrance at the amide, for example by alkyl side chains at the α-carbon, lowers the rate coefficient by up to 75%, indicating that NO3˙-induced oxidation of amide bonds proceeds through initial formation of a charge transfer complex. Furthermore, the rate of oxidative damage of proline and N-methyl glycine is significantly influenced by its position in a peptide. Thus, neighbouring peptide bonds, particularly in the N-direction, reduce the electron density at the tertiary amide, which slows down the rate of ET by up to one order of magnitude. The results from these model studies suggest that the susceptibility of proline residues in peptides to radical-induced oxidative damage should be considerably reduced, compared with the single amino acid.
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ItemExchange-Biasing in a Dinuclear Dysprosium(III) Single-Molecule Magnet with a Large Energy Barrier for Magnetisation Reversal(WILEY-V C H VERLAG GMBH, 2020-05-12)A dichlorido-bridged dinuclear dysprosium(III) single-molecule magnet [Dy2 L2 (μ-Cl)2 (thf)2 ] has been made by using a diamine-bis(phenolate) ligand, H2 L. Magnetic studies show an energy barrier for magnetisation reversal (Ueff ) around 1000 K. An exchange-biasing effect is clearly seen in magnetic hysteresis with steps up to 3 K. Ab initio calculations exclude the possibility of a pure dipolar origin of this effect leading to the conclusion that super-exchange through the chloride bridging ligands is important.
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ItemImpact of COVID-19 pandemic on socioeconomic and mental health aspects in Nepal(SAGE PUBLICATIONS LTD, 2020-07-10)BACKGROUND: Public health concern is increasing with recent rise in the number of COVID-19 cases in Nepal. To curb this pandemic, Nepal is facing some forms of lockdown, encouraging people to implement social distancing so as to reduce interactions between people which could eventually reduce the possibilities of new infection; however, it has affected the overall physical, mental, social and spiritual health of the people. METHODS: Published articles related to psychosocial effects due to COVID-19 and other outbreaks were searched and reviewed. CONCLUSION: While many countries are supporting their citizens with sophisticated health safety-nets and various relief funds, some developing countries have unique challenges with vulnerable populations and limited resources to respond to the pandemic. This review presents the consequences of pandemic and lockdown on socioeconomic, mental health and other aspects in Nepalese society.
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ItemNo Preview AvailableControlled Fabrication of Optical Signal Input/Output Sites on Plasmonic Nanowires(AMER CHEMICAL SOC, 2020-04-08)Silver nanowires have attracted considerable attention as subdiffraction limited diameter waveguides in a variety of applications including cell endoscopy and photonic integrated circuitry. Optical signal transport occurs by coupling light into propagating surface plasmons, which scatter back into light further along the wire. However, these interconversions only occur efficiently at wire ends, or at defects along the wire, which are not controlled during synthesis. Here, we overcome this limitation, demonstrating the visible laser light-induced fabrication of gold nanostructures at desired positions on silver nanowires, and their utility as efficient in/out coupling points for light. The gold nanostructures grow via plasmon-induced reduction of Au(III) and are shown to be excellent "hotspots" for surface-enhanced Raman scattering.
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ItemNo Preview AvailableMannosidase mechanism: at the intersection of conformation and catalysis(CURRENT BIOLOGY LTD, 2020-06-01)Mannosidases are a diverse group of enzymes that are important in the biological processing of mannose-containing polysaccharides and complex glycoconjugates. They are found in 12 of the >160 sequence-based glycosidase families. We discuss evidence that nature has evolved a small set of common mechanisms that unite almost all of these mannosidase families. Broadly, mannosidases (and the closely related rhamnosidases) perform catalysis through just two conformations of the oxocarbenium ion-like transition state: a B2,5 (or enantiomeric 2,5B) boat and a 3H4 half-chair. This extends to a new family (GT108) of GDPMan-dependent β-1,2-mannosyltransferases/phosphorylases that perform mannosyl transfer through a boat conformation as well as some mannosidases that are metalloenzymes and require divalent cations for catalysis. Yet, among this commonality lies diversity. New evidence shows that one unique family (GH99) of mannosidases use an unusual mechanism involving anchimeric assistance via a 1,2-anhydro sugar (epoxide) intermediate.
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ItemNo Preview AvailableCardiolipin is required for membrane docking of mitochondrial ribosomes and protein synthesis(COMPANY BIOLOGISTS LTD, 2020-07-01)The mitochondrial inner membrane contains a unique phospholipid known as cardiolipin (CL), which stabilises the protein complexes embedded in the membrane and supports its overall structure. Recent evidence indicates that the mitochondrial ribosome may associate with the inner membrane to facilitate co-translational insertion of the hydrophobic oxidative phosphorylation (OXPHOS) proteins into the inner membrane. We generated three mutant knockout cell lines for the CL biosynthesis gene Crls1 to investigate the effects of CL loss on mitochondrial protein synthesis. Reduced CL levels caused altered mitochondrial morphology and transcriptome-wide changes that were accompanied by uncoordinated mitochondrial translation rates and impaired respiratory chain supercomplex formation. Aberrant protein synthesis was caused by impaired formation and distribution of mitochondrial ribosomes. Reduction or loss of CL resulted in divergent mitochondrial and endoplasmic reticulum stress responses. We show that CL is required to stabilise the interaction of the mitochondrial ribosome with the membrane via its association with OXA1 (also known as OXA1L) during active translation. This interaction facilitates insertion of newly synthesised mitochondrial proteins into the inner membrane and stabilises the respiratory supercomplexes.