I04-Macromolecular Crystallography
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Torkild
Visnes
,
Carlos
Benítez-buelga
,
Armando
Cázares-körner
,
Kumar
Sanjiv
,
Bishoy M. F.
Hanna
,
Oliver
Mortusewicz
,
Varshni
Rajagopal
,
Julian J.
Albers
,
Daniel W
Hagey
,
Tove
Bekkhus
,
Saeed
Eshtad
,
Juan Miguel
Baquero
,
Geoffrey
Masuyer
,
Olov
Wallner
,
Sarah
Müller
,
Therese
Pham
,
Camilla
Göktürk
,
Azita
Rasti
,
Sharda
Suman
,
Raúl
Torres-ruiz
,
Antonio
Sarno
,
Elisée
Wiita
,
Evert J.
Homan
,
Stella
Karsten
,
Karthick
Marimuthu
,
Maurice
Michel
,
Tobias
Koolmeister
,
Martin
Scobie
,
Olga
Loseva
,
Ingrid
Almlöf
,
Judith Edda
Unterlass
,
Aleksandra
Pettke
,
Johan
Boström
,
Monica
Pandey
,
Helge
Gad
,
Patrick
Herr
,
Ann-sofie
Jemth
,
Samir
El andaloussi
,
Christina
Kalderén
,
Sandra
Rodriguez-perales
,
Javier
Benítez
,
Hans E
Krokan
,
Mikael
Altun
,
Pal
Stenmark
,
Ulrika Warpman
Berglund
,
Thomas
Helleday
Diamond Proposal Number(s):
[15806]
Open Access
Abstract: Altered oncogene expression in cancer cells causes loss of redox homeostasis resulting in oxidative DNA damage, e.g. 8-oxoguanine (8-oxoG), repaired by base excision repair (BER). PARP1 coordinates BER and relies on the upstream 8-oxoguanine-DNA glycosylase (OGG1) to recognise and excise 8-oxoG. Here we hypothesize that OGG1 may represent an attractive target to exploit reactive oxygen species (ROS) elevation in cancer. Although OGG1 depletion is well tolerated in non-transformed cells, we report here that OGG1 depletion obstructs A3 T-cell lymphoblastic acute leukemia growth in vitro and in vivo, validating OGG1 as a potential anti-cancer target. In line with this hypothesis, we show that OGG1 inhibitors (OGG1i) target a wide range of cancer cells, with a favourable therapeutic index compared to non-transformed cells. Mechanistically, OGG1i and shRNA depletion cause S-phase DNA damage, replication stress and proliferation arrest or cell death, representing a novel mechanistic approach to target cancer. This study adds OGG1 to the list of BER factors, e.g. PARP1, as potential targets for cancer treatment.
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Nov 2020
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I11-High Resolution Powder Diffraction
I19-Small Molecule Single Crystal Diffraction
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Open Access
Abstract: The metal–organic framework (Me2NH2)2[Cd(NO2BDC)2] (SHF-81) comprises flattened tetrahedral Cd(O2CR)42− nodes, in which Cd(II) centres are linked via NO2BDC2− ligands (2-nitrobenzene-1,4-dicarboxylate) to give a doubly interpenetrated anionic network, with charge balanced by two Me2NH2+ cations per Cd centre resident in the pores. The study establishes that this is a twinned α-quartz-type structure (trigonal, space group P3x21, x = 1 or 2), although very close to the higher symmetry β-quartz arrangement (hexagonal, P6x22, x = 2 or 4) in its as-synthesised solvated form [Cd(NO2BDC)2]·2DMF·0.5H2O (SHF-81-DMF). The activated MOF exhibits very little N2 uptake at 77 K, but shows significant CO2 uptake at 273–298 K with an isosteric enthalpy of adsorption (ΔHads) at zero coverage of −27.4 kJ mol−1 determined for the MOF directly activated from SHF-81-DMF. A series of in situ diffraction experiments, both single-crystal X-ray diffraction (SCXRD) and powder X-ray diffraction (PXRD), reveal that the MOF is flexible and exhibits breathing behaviour with observed changes as large as 12% in the a- and b-axes (|Δa|, |Δb| < 1.8 Å) and 5.5% in the c-axis (|Δc| < 0.7 Å). Both the solvated SHF-81-DMF and activated/desolvated SHF-81 forms of the MOF exhibit linear negative thermal expansion (NTE), in which pores that run parallel to the c-axis expand in diameter (a- and b-axis) while contracting in length (c-axis) upon increasing temperature. Adsorption of CO2 gas at 298 K also results in linear negative expansion (Δa, Δb > 0; Δc < 0; ΔV > 0). The largest change in dimensions is observed during activation/desolvation from SHF-81-DMF to SHF-81 (Δa, Δb < 0; Δc > 0; ΔV < 0). Collectively the nine in situ diffraction experiments conducted suggest the breathing behaviour is continuous, although individual desolvation and adsorption experiments do not rule out the possibility of a gating or step at intermediate geometries that is coupled with continuous dynamic behaviour towards the extremities of the breathing amplitude.
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Nov 2020
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I02-Macromolecular Crystallography
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Alfredo
Picado
,
Apirat
Chaikuad
,
Carrow I.
Wells
,
Safal
Shrestha
,
William J.
Zuercher
,
Julie E.
Pickett
,
Frank E.
Kwarcinski
,
Parvathi
Sinha
,
Chandi S.
De Silva
,
Reena
Zutshi
,
Shubin
Liu
,
Natarajan
Kannan
,
Stefan
Knapp
,
David H.
Drewry
,
Timothy M.
Willson
Abstract: STK17B is a member of the death-associated protein kinase family and has been genetically linked to the development of diverse diseases. However, the role of STK17B in normal and disease pathology is poorly defined. Here, we present the discovery of thieno[3,2-d] pyrimidine SGC-STK17B-1 (11s), a high-quality chemical probe for this understudied “dark” kinase. 11s is an ATP-competitive inhibitor that showed remarkable selectivity over other kinases including the closely related STK17A. X-ray crystallography of 11s and related thieno[3,2-d]pyrimidines bound to STK17B revealed a unique P-loop conformation characterized by a salt bridge between R41 and the carboxylic acid of the inhibitor. Molecular dynamic simulations of STK17B revealed the flexibility of the P-loop and a wide range of R41 conformations available to the apo-protein. The isomeric thieno[2,3-d]pyrimidine SGC-STK17B-1N (19g) was identified as a negative control compound. The >100-fold lower activity of 19g on STK17B was attributed to the reduced basicity of its pyrimidine N1.
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Nov 2020
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I06-Nanoscience
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S.
Duttagupta
,
A.
Kurenkov
,
O. A.
Tretiakov
,
G.
Krishnaswamy
,
G.
Sala
,
V.
Krizakova
,
F.
Maccherozzi
,
S. S.
Dhesi
,
P.
Gambardella
,
S.
Fukami
,
H.
Ohno
Diamond Proposal Number(s):
[20413]
Open Access
Abstract: The ability to represent information using an antiferromagnetic material is attractive for future antiferromagnetic spintronic devices. Previous studies have focussed on the utilization of antiferromagnetic materials with biaxial magnetic anisotropy for electrical manipulation. A practical realization of these antiferromagnetic devices is limited by the requirement of material-specific constraints. Here, we demonstrate current-induced switching in a polycrystalline PtMn/Pt metallic heterostructure. A comparison of electrical transport measurements in PtMn with and without the Pt layer, corroborated by x-ray imaging, reveals reversible switching of the thermally-stable antiferromagnetic Néel vector by spin-orbit torques. The presented results demonstrate the potential of polycrystalline metals for antiferromagnetic spintronics.
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Nov 2020
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I22-Small angle scattering & Diffraction
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Diamond Proposal Number(s):
[18563]
Open Access
Abstract: The addition of alkali metal halides to hybrid perovskite materials can significantly impact their crystallisation and hence their performance when used in solar cell devices. Previous work on the use of potassium iodide (KI) in active layers to passivate defects in triple-cation mixed-halide perovskites has been shown to enhance their luminescence efficiency and reduce current–voltage hysteresis. However, the operational stability of KI passivated perovskite solar cells under ambient conditions remains largely unexplored. By investigating perovskite solar cell performance with SnO2 or TiO2 electron transport layers (ETL), we propose that defect passivation using KI is highly sensitive to the composition of the perovskite–ETL interface. We reconfirm findings from previous reports that KI preferentially interacts with bromide ions in mixed-halide perovskites, and – at concentrations >5 mol% in the precursor solution – modifies the primary absorber composition as well as leading to the phase segregation of an undesirable secondary non-perovskite phase (KBr) at high KI concentration. Importantly, by studying both material and device stability under continuous illumination and bias under ambient/high-humidity conditions, we show that this secondary phase becomes a favourable degradation product, and that devices incorporating KI have reduced stability.
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Nov 2020
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I03-Macromolecular Crystallography
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Rebecca
Roddan
,
Altin
Sula
,
Daniel
Méndez-sánchez
,
Fabiana
Subrizi
,
Benjamin R.
Lichman
,
Joseph
Broomfield
,
Michael
Richter
,
Jennifer N.
Andexer
,
John M.
Ward
,
Nicholas
Keep
,
Helen C.
Hailes
Diamond Proposal Number(s):
[23583]
Open Access
Abstract: The 1-aryl-tetrahydroisoquinoline (1-aryl-THIQ) moiety is found in many biologically active molecules. Single enantiomer chemical syntheses are challenging and although some biocatalytic routes have been reported, the substrate scope is limited to certain structural motifs. The enzyme norcoclaurine synthase (NCS), involved in plant alkaloid biosynthesis, has been shown to perform stereoselective Pictet–Spengler reactions between dopamine and several carbonyl substrates. Here, benzaldehydes are explored as substrates and found to be accepted by both wild-type and mutant constructs of NCS. In particular, the variant M97V gives a range of (1 S)-aryl-THIQs in high yields (48–99%) and e.e.s (79–95%). A co-crystallised structure of the M97V variant with an active site reaction intermediate analogue is also obtained with the ligand in a pre-cyclisation conformation, consistent with (1 S)-THIQs formation. Selected THIQs are then used with catechol O-methyltransferases with exceptional regioselectivity. This work demonstrates valuable biocatalytic approaches to a range of (1 S)-THIQs.
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Nov 2020
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I02-Macromolecular Crystallography
I04-Macromolecular Crystallography
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Yousuke
Yamada
,
Hajime
Takashima
,
David Lee
Walmsley
,
Fumihito
Ushiyama
,
Yohei
Matsuda
,
Harumi
Kanazawa
,
Toru
Yamaguchi-sasaki
,
Nozomi
Tanaka-yamamoto
,
Junya
Yamagishi
,
Risa
Kurimoto-tsuruta
,
Yuya
Ogata
,
Norikazu
Ohtake
,
Hayley
Angove
,
Lisa
Baker
,
Richard
Harris
,
Alba
Macias
,
Alan
Robertson
,
Allan
Surgenor
,
Hayato
Watanabe
,
Koichiro
Nakano
,
Masashi
Mima
,
Kunihiko
Iwamoto
,
Atsushi
Okada
,
Iichiro
Takata
,
Kosuke
Hitaka
,
Akihiro
Tanaka
,
Kiyoko
Fujita
,
Hiroyuki
Sugiyama
,
Roderick E.
Hubbard
Diamond Proposal Number(s):
[12428]
Abstract: UDP-3-O-acyl-N-acetylglucosamine deacetylase (LpxC) is a zinc metalloenzyme that catalyzes the first committed step in the biosynthesis of Lipid A, an essential component of the cell envelope of Gram-negative bacteria. The most advanced, disclosed LpxC inhibitors showing antibacterial activity coordinate zinc through a hydroxamate moiety with concerns about binding to other metalloenzymes. Here, we describe the discovery, optimization, and efficacy of two series of compounds derived from fragments with differing modes of zinc chelation. A series was evolved from a fragment where a glycine moiety complexes zinc, which achieved low nanomolar potency in an enzyme functional assay but poor antibacterial activity on cell cultures. A second series was based on a fragment that chelated zinc through an imidazole moiety. Structure-guided design led to a 2-(1S-hydroxyethyl)-imidazole derivative exhibiting low nanomolar inhibition of LpxC and a minimum inhibitory concentration (MIC) of 4 μg/mL against Pseudomonas aeruginosa, which is little affected by the presence of albumin.
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Nov 2020
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E02-JEM ARM 300CF
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Diamond Proposal Number(s):
[26559]
Open Access
Abstract: Single-particle reconstruction can be used to perform three-dimensional (3D) imaging of homogeneous populations of nano-sized objects, in particular viruses and proteins. Here, it is demonstrated that it can also be used to obtain 3D reconstructions of heterogeneous populations of inorganic nanoparticles. An automated acquisition scheme in a scanning transmission electron microscope is used to collect images of thousands of nanoparticles. Particle images are subsequently semi-automatically clustered in terms of their properties and separate 3D reconstructions are performed from selected particle image clusters. The result is a 3D dataset that is representative of the full population. The study demonstrates a methodology that allows 3D imaging and analysis of inorganic nanoparticles in a fully automated manner that is truly representative of large particle populations.
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Nov 2020
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I19-Small Molecule Single Crystal Diffraction
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Jonathan
Bould
,
Kamil
Lang
,
Kaplan
Kirakci
,
Luis
Cerdán
,
Daniel
Roca-sanjuán
,
Antonio
Francés-monerris
,
William
Clegg
,
Paul G.
Waddell
,
Marcel
Fuciman
,
Tomáš
Polívka
,
Michael G. S.
Londesborough
Diamond Proposal Number(s):
[22240]
Abstract: We present the first examples of alkylated derivatives of the macropolyhedral boron hydride, anti-B18H22, which is the gain medium in the first borane laser. This new series of ten highly stable and colorless organic–inorganic hybrid clusters are capable of the conversion of UVA irradiation to blue light with fluorescence quantum yields of unity. This study gives a comprehensive description of their synthesis, isolation, and structural characterization together with a delineation of their photophysical properties using a combined theoretical and experimental approach. Treatment of anti-B18H221 with RI (where R = Me or Et) in the presence of AlCl3 gives a series of alkylated derivatives, Rx-anti-B18H22–x (where x = 2 to 6), compounds 2–6, in which the 18-vertex octadecaborane cluster architectures are preserved and yet undergo a linear “polyhedral swelling”, depending on the number of cluster alkyl substituents. The use of dichloromethane solvent in the synthetic procedure leads to dichlorination of the borane cluster and increased alkylation to give Me11-anti-B18H9Cl211, Me12-anti-B18H8Cl212, and Me13-anti-B18H7Cl213. All new alkyl derivatives are highly stable, extremely efficient (ΦF = 0.76–1.0) blue fluorophores (λems = 423–427 nm) and are soluble in a wide range of organic solvents and also a polystyrene matrix. The Et4-anti-B18H18 derivative 4b crystallizes from pentane solution in two phases with consequent multiabsorption and multiemission photophysical properties. An ultrafast transient UV–vis absorption spectroscopic study of compounds 4a and 4b reveals that an efficient excited-state absorption at the emission wavelength inhibits the laser performance of these otherwise remarkable luminescent molecules. All these new compounds add to the growing portfolio of octadecaborane-based luminescent species, and in an effort to broaden the perspective on their highly emissive photophysical properties, we highlight emerging patterns that successive substitutions have on the molecular size of the 18-vertex borane cluster structure and the distribution of the electron density within.
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Nov 2020
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B18-Core EXAFS
E01-JEM ARM 200CF
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Diamond Proposal Number(s):
[15151, 21370, 19246, 22572]
Abstract: Selective transformation of biomass feedstocks to platform molecules is a key pursuit for sustainable chemical production. Compared to petrochemical processes, biomass transformation requires the defunctionalization of highly polar molecules at relatively low temperatures. As a result, catalysts based on functional organic polymers may play a prominent role. Targeting the hydrogenolysis of the platform chemical 5-hydroxymethylfurfural (5-HMF), here, we design a polyphenylene (PPhen) framework with purely sp2-hybridized carbons that can isolate 5-HMF via π–π stacking, preventing hemiacetal and humin formation. With good swellability, the PPhen framework here has successfully supported and dispersed seven types of metal particles via a newly developed swelling-impregnation method, including Ru, Pt, Au, Fe, Co, Ni, and Cu. Ru/PPhen is studied for 5-HMF hydrogenolysis, achieving a 92% yield of 2,5-dimethylfuran (DMF) under mild conditions, outperforming the state-of-the-art catalysts reported in the literature. In addition, PPhen helps perform a solventless reaction, achieving direct 5-HMF to DMF conversion in the absence of any liquid solvent or reagent. This approach in designing support–reactant/solvent/metal interactions will play an important role in surface catalysis.
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Nov 2020
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