I18-Microfocus Spectroscopy
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Anouk M.
Borst
,
Martin P.
Smith
,
Adrian
Finch
,
Guillaume
Estrade
,
Cristina
Villanova-de-benavent
,
Peter
Nason
,
Eva
Marquis
,
Nicola J.
Horsburgh
,
Kathryn M.
Goodenough
,
Cheng
Xu
,
Jindřich
Kynický
,
Kalotina
Geraki
Diamond Proposal Number(s):
[14793, 15903]
Open Access
Abstract: Global resources of heavy Rare Earth Elements (REE) are dominantly sourced from Chinese regolith-hosted ion-adsorption deposits in which the REE are inferred to be weakly adsorbed onto clay minerals. Similar deposits elsewhere might provide alternative supply for these high-tech metals, but the adsorption mechanisms remain unclear and the adsorbed state of REE to clays has never been demonstrated in situ. This study compares the mineralogy and speciation of REE in economic weathering profiles from China to prospective regoliths developed on peralkaline rocks from Madagascar. We use synchrotron X-ray absorption spectroscopy to study the distribution and local bonding environment of Y and Nd, as proxies for heavy and light REE, in the deposits. Our results show that REE are truly adsorbed as easily leachable 8- to 9-coordinated outer-sphere hydrated complexes, dominantly onto kaolinite. Hence, at the atomic level, the Malagasy clays are genuine mineralogical analogues to those currently exploited in China.
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Dec 2020
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I04-1-Macromolecular Crystallography (fixed wavelength)
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Lucía
Serran Aguilera
,
Elena
Mariotto
,
Gianluca
Rubbini
,
Francisco Fermín
Castro Navas
,
Carmen
Marco
,
María Paz
Carrasco-jiménez
,
Marco
Ballarotto
,
Antonio
Macchiarulo
,
Ramon
Hurtado-guerrero
,
Giampietro
Viola
,
Luisa Carlota
Lopez-cara
Diamond Proposal Number(s):
[8035]
Abstract: Seeking for new anticancer drugs with strong antiproliferative activity and simple molecular structure, we designed a novel series of compounds based on our previous reported pharmacophore model composed of five moieties. Antiproliferative assays on four tumoral cell lines and evaluation of Human Choline Kinase CKα1 enzymatic activity was performed for these compounds. Among tested molecules, those ones with biphenyl spacer showed betters enzymatic and antiproliferative activities (n-v). Docking and crystallization studies validate the hypothesis and confirm the results. The most active compound (t) induces a significant arrest of the cell cycle in G0/G1 phase that ultimately lead to apoptosis, following the mitochondrial pathway, as demonstrated for other choline kinase inhibitors. However additional assays reveal that the inhibition of choline uptake could also be involved in the antiproliferative outcome of this class of compounds.
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Dec 2020
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Open Access
Abstract: Time-resolved serial femtosecond crystallography (tr-SFX) methods exploit slurries of crystalline samples that range in size from hundreds of nanometers to a few tens of micrometers, at near-physiological temperature and pressure, to generate atomic resolution models and probe authentic function with the same experiment. ‘Dynamic structural biology’ is often used to encompass the research philosophy and techniques. Reaction cycles for tr-SFX studies are initiated by photons or ligand addition/mixing strategies, wherein the latter are potentially generalizable across enzymology. Thus, dynamic structural biology often creates stop-motion molecular movies of macromolecular function. In metal-dependent systems, complementary spectroscopic information can also be collected from the same samples and X-ray pulses, which provides even more detailed mechanistic insights. These types of experimental data also complement quantum mechanical and classical dynamics numerical calculations. Correlated structural-functional results will yield more detailed mechanistic insights and will likely translate into better drugs and treatments impacting human health, and better catalysis for clean energy and agriculture.
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Dec 2020
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I12-JEEP: Joint Engineering, Environmental and Processing
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Diamond Proposal Number(s):
[16771]
Open Access
Abstract: An experimental technique is described for the collection of time-resolved X-ray diffraction information from a complete commercial battery cell during discharging or charging cycles. The technique uses an 80 × 80 pixel 2D energy-discriminating detector in a pinhole camera geometry which can be used with a polychromatic X-ray source. The concept was proved in a synchrotron X-ray study of commercial alkaline Zn–MnO2 AA size cells. Importantly, no modification of the cell was required. The technique enabled spatial and temporal changes to be observed with a time resolution of 20 min (5 min of data collection with a 15 min wait between scans). Chemical changes in the cell determined from diffraction information were correlated with complementary X-ray tomography scans performed on similar cells from the same batch. The clearest results were for the spatial and temporal changes in the Zn anode. Spatially, there was a sequential transformation of Zn to ZnO in the direction from the separator towards the current collector. Temporally, it was possible to track the transformation of Zn to ZnO during the discharge and follow the corresponding changes in the cathode.
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Dec 2020
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B18-Core EXAFS
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Diamond Proposal Number(s):
[17243]
Open Access
Abstract: Brannerite glass-ceramic composites have been suggested as suitable wasteform materials for high-actinide content wastes, but the formation of glass-ceramic composites containing stoichiometric uranium brannerite (UTi2O6) has not been well-studied. Uranium brannerite glass-ceramic composites were synthesised at by a one-pot cold-press and sinter route from the component oxides. As a comparison, two further samples were produced using an alkoxide-nitrate route. A range of compositions with varying molar ratios of uranium and titanium oxides (from 1:2 to 1:3.20) were synthesised, with a range of different heat treatments (1200 °C for 12–48 h, and 1250 °C for 12 h). All compositions were analysed by X-ray diffraction, scanning electron microscopy, energy dispersive X-ray spectroscopy, and X-ray near-edge spectroscopy, and found to contain UTi2O6 as the majority crystalline phase forming within a glass matrix of nominal stoichiometry Na2AlBSi6O16. In compositions with UO2:TiO2 ratios of 1:2 and 1:2.28, particles of UO2 were observed in the glass matrix, likely due to dissolution of TiO2 in the glass phase; this was prevented by the addition of excess TiO2. This work demonstrates the suitability of this system to produce highly durable wasteforms with excellent actinide waste loading, even with a simple one-pot process. Some grains of brannerite consist of a UO2 particle encapsulated in a shell of UTi2O6, suggesting that brannerite crystallises around particles of UO2 until either the UO2 is fully depleted, or the kinetic barrier becomes too large for further diffusion to occur. We propose that the formation of brannerite within glass-ceramic composites at lower temperatures than that for pure ceramic brannerite is caused by an increase in the rate of diffusion of the reactants within the glass.
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Dec 2020
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B23-Circular Dichroism
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Diamond Proposal Number(s):
[15313, 14658, 14430]
Abstract: Background: Human Exonuclease1 (hExo1) participates in the resection of DNA double-strand breaks by generating long 3′-single-stranded DNA overhangs, critical for homology-based DNA repair and activation of the ATR-dependent checkpoint. The C-terminal region is essential for modulating the activity of hExo1, containing numerous sites of post-translational modification and binding sites for partner proteins. Methods: Analytical Ultracentrifugation (AUC), Dynamic Light Scattering (DLS), Circular Dichroism (CD) spectroscopy and enzymatic assays. Results: AUC and DLS indicates the C-terminal region has a highly extended structure while CD suggest a tendency to adopt a novel left-handed β-sheet structure, together implying the C-terminus may exhibit a transient fluctuating structure that could play a role in binding partner proteins known to regulate the activity of hExo1. Interaction with 14–3-3 protein has a cooperative inhibitory effect upon DNA resection activity, which indicates an allosteric transition occurs upon binding partner proteins. Conclusions: This study has uncovered that hExo1 consist of a folded N-terminal nuclease domain and a highly extended C-terminal region which is known to interact with partner proteins that regulates the activity of hExo1. A positively cooperative mechanism of binding allows for stringent control of hExo1 activity. Such a transition would coordinate the control of hExo1 by hExo1 regulators and hence allow careful coordination of the process of DNA end resection.
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Dec 2020
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I03-Macromolecular Crystallography
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Sébastien L.
Degorce
,
Anna
Aagaard
,
Rana
Anjum
,
Iain A.
Cumming
,
Coura R.
Diène
,
Charlene
Fallan
,
Tony
Johnson
,
Karl-johan
Leuchowius
,
Alexandra L.
Orton
,
Stuart
Pearson
,
Graeme R.
Robb
,
Alan
Rosen
,
Graeme B.
Scarfe
,
James S.
Scott
,
James M.
Smith
,
Oliver R.
Steward
,
Ina
Terstiege
,
Michael J.
Tucker
,
Paul
Turner
,
Stephen D.
Wilkinson
,
Gail L.
Wrigley
,
Yafeng
Xue
Abstract: In this article, we report our efforts towards improving in vitro human clearance in a series of 5-azaquinazolines through a series of C4 truncations and C2 expansions. Extensive DMPK studies enabled us to tackle high Aldehyde Oxidase (AO) metabolism and unexpected discrepancies in human hepatocyte and liver microsomal intrinsic clearance. Our efforts culminated with the discovery of 5-azaquinazoline 35, which also displayed exquisite selectivity for IRAK4, and showed synergistic in vitro activity against MyD88/CD79 double mutant ABC-DLBCL in combination with the covalent BTK inhibitor acalabrutinib.
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Dec 2020
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Krios I-Titan Krios I at Diamond
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Diamond Proposal Number(s):
[6916, 17171]
Open Access
Abstract: Glycogen and starch are the major carbon and energy reserve polysaccharides in nature, providing living organisms with a survival advantage. The evolution of the enzymatic machinery responsible for the biosynthesis and degradation of such polysaccharides, led the development of mechanisms to control the assembly and disassembly rate, to store and recover glucose according to cell energy demands. The tetrameric enzyme ADP-glucose pyrophosphorylase (AGPase) catalyzes and regulates the initial step in the biosynthesis of both α-polyglucans. AGPase displays cooperativity and allosteric regulation by sensing metabolites from the cell energy flux. The understanding of the allosteric signal transduction mechanisms in AGPase arises as a long-standing challenge. In this work, we disclose the cryoEM structures of the paradigmatic homotetrameric AGPase from Escherichia coli (EcAGPase), in complex with either positive or negative physiological allosteric regulators, fructose-1,6-bisphosphate (FBP) and AMP respectively, both at 3.0 Å resolution. Strikingly, the structures reveal that FBP binds deeply into the allosteric cleft and overlaps the AMP site. As a consequence, FBP promotes a concerted conformational switch of a regulatory loop, RL2, from a “locked” to a “free” state, modulating ATP binding and activating the enzyme. This notion is strongly supported by our complementary biophysical and bioinformatics evidence, and a careful analysis of vast enzyme kinetics data on single-point mutants of EcAGPase. The cryoEM structures uncover the residue interaction networks (RIN) between the allosteric and the catalytic components of the enzyme, providing unique details on how the signaling information is transmitted across the tetramer, from which cooperativity emerges. Altogether, the conformational states visualized by cryoEM reveal the regulatory mechanism of EcAGPase, laying the foundations to understand the allosteric control of bacterial glycogen biosynthesis at the molecular level of detail.
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Nov 2020
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I09-Surface and Interface Structural Analysis
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Diamond Proposal Number(s):
[15899, 18191]
Abstract: The structure of coadsorption phases formed on Ag(111) by TCNQ (7,7,8,8-tetracyanoquinodimethane) with Cs are compared with previously reported coadsorption phases formed with K, following investigation by scanning tunnelling microscopy (STM), low energy electron diffraction, soft X-ray photoelectrons spectroscopy and normal incidence X-ray standing waves (NIXSW). For each alkali we identify two ordered phases, one with an alkali: TCNQ stoichiometry of 1:1 and the other 2:1. STM images show the molecular organisation is the same for Cs and K, although only the K2TCNQ phase is commensurate with the substrate. A previously-published detailed structure determination of the K2TCNQ phase, complemented by density function theory calculations that identify bonding strengths, showed that the binding within the layer is much stronger than that of the layer to the substrate. Insensitivity to commensuration is thus to be expected. The situation for KTCNQ and CsTCNQ is less clear; these ordered incommensurate overlayers clearly have strong intralayer bonding, but the relative strength of the average overlayer-substrate bonding is unknown. NIXSW data show that the alkalis in these phases occupy adsorption sites far more distant from the substrate than the TCNQ molecules when compared to the near coplanar alkali-TCNQ geometry of K2TCNQ and Cs2TCNQ. Ultraviolet photoelectron spectra show increasing bonding shifts of TCNQ orbital states with alkali coverage.
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Nov 2020
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B18-Core EXAFS
I18-Microfocus Spectroscopy
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Eitaro
Kurihara
,
Masato
Takehara
,
Mizuki
Suetake
,
Ryohei
Ikehara
,
Tatsuki
Komiya
,
Kazuya
Morooka
,
Ryu
Takami
,
Shinya
Yamasaki
,
Toshihiko
Ohnuki
,
Kenji
Horie
,
Mami
Takehara
,
Gareth T. W.
Law
,
William
Bower
,
J. Frederick W.
Mosselmans
,
Peter
Warnicke
,
Bernd
Grambow
,
Rodney C.
Ewing
,
Satoshi
Utsunomiya
Diamond Proposal Number(s):
[21211]
Abstract: Traces of Pu have been detected in material released from the Fukushima Daiichi Nuclear Power Plant (FDNPP) in March of 2011; however, to date the physical and chemical form of the Pu have remained unknown. Here we report the discovery of particulate Pu associated with cesium-rich microparticles (CsMPs) that formed in and were released from the reactors during the FDNPP meltdowns. The Cs-pollucite-based CsMP contained discrete U(IV)O2 nanoparticles, <~10 nm, one of which is enriched in Pu adjacent to fragments of Zr-cladding. The isotope ratios, 235U/238U, 240Pu/239Pu, and 242Pu/239Pu, of the CsMPs were determined to be ~0.0193, ~0.347, and ~0.065, respectively, which are consistent with the calculated isotopic ratios of irradiated-fuel fragments. Thus, considering the regional distribution of CsMPs, the long-distance dispersion of Pu from FNDPP is attributed to the transport by CsMPs that have incorporated nanoscale fuel fragments prior to their dispersion up to 230 km away from the Fukushima Daiichi reactor site.
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Nov 2020
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