B21-High Throughput SAXS
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Diamond Proposal Number(s):
[36130]
Open Access
Abstract: Nakaseomyces glabratus is an opportunistic pathogen of humans, causing invasive candidiasis (IC). Among the risk factors that favor IC are various host-specific factors. Although drugs are available to treat candidiasis, their clinical application remains limited. Therefore, it is necessary to identify therapeutic targets that will enable the development of new antifungals. In this regard, our research group has identified enzymes as potential therapeutic targets in N. glabratus, including fructose-1,6-bisphosphate aldolase (Fba1) and pyruvate kinase (Pk). Enzyme activity studies on these two enzymes have shown that they are important therapeutic targets against this pathogen. However, their three-dimensional structure has not yet been elucidated, an essential requirement for designating an enzyme as a therapeutic target. To propose Fba1 and Pk of N. glabratus as potential therapeutic targets, we investigated the solution structure and oligomeric state of N. glabratus Fba1 and Pk for the first time by combining Small-Angle X-ray Scattering (SAXS) with AlphaFold3 modeling. SAXS data were collected on the B21 beamline at Diamond Light Source (Didcot, UK), providing solution-scattering profiles, molecular-weight estimates, and low-resolution molecular envelopes. These data indicate that Pk is monomeric and Fba1 homodimeric in solution were used to evaluate and refine the corresponding AlphaFold3 atomic models by molecular dynamics. These structural findings for Fba1 and Pk from N. glabratus open the door to understanding these enzymes as potential therapeutic targets against this pathogen and, at the same time, a basis for future comparative studies.
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Sep 2026
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I04-1-Macromolecular Crystallography (fixed wavelength)
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Diamond Proposal Number(s):
[36570]
Open Access
Abstract: Leishmaniasis is a neglected disease that affects around two million people every year. Current treatments are often highly toxic or prone to resistance, underscoring the urgent need for new therapeutic strategies. PROTACs may offer a promising alternative, as they can potentially mitigate both toxicity and resistance. However, very little is known about the ubiquitin–proteasome system (UPS) in Leishmania. Notably, only two E3 ligases containing a CULT domain have been identified so far, and none carrying a von Hippel–Lindau (VHL) domain─the classical E3 ligase used by clinically advanced PROTACs. In this work, we take an important step toward understanding the UPS in Leishmania, and we propose that in this organism the UbC4 E2 enzyme, rather than an E3, may be directly exploited to develop a PROTAC able to engage a protein of interest. Here, we report the biochemical and structural characterization of the Leishmania major ubiquitin-conjugating enzyme 4 (UbC4). Through a fragment screening campaign, we identified 10 fragments binding to distinct cavities on UbC4. Among these, five interact with the same noncatalytic pocket that is poorly conserved in humans, while one fragment binds near the catalytic cysteine. Using DeepFrag predictions and molecular docking, we explored fragment elongation strategies to enhance affinity for their respective binding sites, with the goal of guiding the development of E2-recruiting PROTACs or UPS inhibitors for the treatment of leishmaniasis.
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Sep 2026
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I03-Macromolecular Crystallography
I04-1-Macromolecular Crystallography (fixed wavelength)
I04-Macromolecular Crystallography
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Laura N.
Jeffreys
,
Sian
Thistlethwaite
,
Matthew J.
Cliff
,
Harshwardhan
Poddar
,
Sahara
Bhanot
,
Richard B.
Tunnicliffe
,
Marina
Golovanova
,
Katherine
Hollywood
,
Colin W.
Levy
,
Michael W.
Voice
,
David
Leys
,
Kirsty J.
Mclean
,
Jonathan P.
Waltho
,
Andrew W.
Munro
,
Hazel M.
Girvan
Diamond Proposal Number(s):
[17773, 24447]
Open Access
Abstract: P450 BM3 is a natural fusion protein with a P450 domain fused to its necessary redox partner and capable of binding a range of fatty acids at high catalytic rates. The flexibility of the active site and catalytic efficiency have led to extensive research aimed at modifying substrate and product profiles for its utilization as a biocatalyst. The introduction of a double mutation (DM) at the base of the active site (A82F/F87V) allows the binding of a broad range of structurally diverse small molecules, including pharmaceutical drugs. Herein, we describe screening with an FDA-approved drug compound library, and the results exhibit the promiscuous nature of the DM BM3 variant. Of the 978 compounds screened; 59% of the library elicited UV–vis spectral shifts indicative of binding with a range of structurally diverse drugs. The interaction of the DM BM3 variant with a range of structurally diverse drugs, with a particular focus on the antidiabetic glitazone (thiazolidinedione) class, was investigated to observe ligand binding modes and metabolite production. BM3-derived metabolites were successfully produced and structurally elucidated for several structurally diverse drugs in the steroid, glitazone, meglitinide, terpene lactone, retinoid, and fibrate classes. The range of modifications performed includes some that are human P450-derived metabolites. Structural elucidation of the troglitazone-bound DM variant P450 domain shows an unusually close crystallographic interaction between the substrate and heme cofactor. We report here the use of the DM BM3 variant as a model for the main human metabolizing P450 enzymes CYP1A1, CYP2B6, CYP2C8, CYP2C9, and CYP3A4, as well as a biotechnological tool for the production of metabolites with diverse functionality.
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Aug 2026
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B18-Core EXAFS
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Diamond Proposal Number(s):
[15151]
Open Access
Abstract: The development of efficient and durable electrocatalysts for the formic acid oxidation reaction (FAOR) is central to the progress of direct formic acid fuel cells (DFAFCs). Here, we investigate how the synthesis sequence and reduction pathway influence the surface and electronic structure of PdAgNi(OH)2/C nanocomposites and, consequently, their FAOR performance in acidic media. Binary Pd/Ni(OH)2 catalysts with Pd/Ni(OH)2 mass ratios of 30:70, 50:50, and 70:30 were first screened, revealing 50:50 as the optimal composition. Partial substitution of Pd by Ag (Pd40Ag10 and Pd30Ag20 on Ni(OH)2(50)/C) was then combined with either sequential or simultaneous NaBH4-assisted reduction. Structural characterization by XRD, TEM, and XANES/EXAFS show that simultaneous coreduction tightens the Pd–Ag–Ni interfacial coupling, enhances Pd dispersion, and increases the contribution of Pd–O and Pd–Ni scattering paths, indicative of strong metal–oxide interactions. Electrochemical measurements demonstrate that the Pd30Ag20Ni(OH)2(50)/C catalyst prepared by simultaneous reduction exhibits the highest mass activity toward FAOR (6164 mA mgPd–1), a ca. 23-fold enhancement over commercial Pd/C, together with improved stability under potential cycling. These results demonstrate that controlling the synthesis sequence is an effective method for tuning the interfacial electronic structure of multicomponent Pd-based catalysts, providing practical guidelines for designing FAOR electrocatalysts for DFAFCs and related liquid-fuel energy conversion devices.
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May 2026
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B21-High Throughput SAXS
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Juliane N. B. D.
Pelin
,
Lucas R.
De Mello
,
Raquel Allen Garcia Barbeto
Siqueira
,
Matheus De
Souza Alves
,
Valeria
Castelletto
,
João Francisco
Almeida
,
Jani
Seitsonen
,
Patricia Santos
Lopes
,
Vânia
Leite-Silva
,
Newton
Andreo-Filho
,
Ian W.
Hamley
Diamond Proposal Number(s):
[3575]
Open Access
Abstract: New lipopeptide analogues of C16–KTTKS, containing tyrosine (C16–KTTKY) and glutamic acid (C16–KTTKE) residues, were characterized by physicochemical and biological assays to understand their collagen stimulation and ability to control skin commensal microorganism growth. The presence of nanotapes based on stacked lipopeptide lamellae was confirmed by cryogenic transmission electron microscopy and small-angle X-ray scattering. Variations in zeta potential as a function of lipopeptide concentration indicated the electrostatic stability of C16–KTTKE, while C16–KTTKY was stable at a lower concentration, with a similar aggregation state. Circular dichroism spectra revealed a transition from random coil to β-sheet for both peptides with increasing temperature (up to 50 °C). Significant statistical reductions in cell viability below 70% were observed at concentrations above 0.00625 wt % for C16–KTTKE and 0.00156 wt % for C16–KTTKY, respectively. At higher lipopeptide concentrations, C16–KTTKE promotes a decrease in total collagen production by human dermal fibroblasts; however, it has antioxidant properties. In contrast, C16–KTTKY stimulates a considerable increase in the level of total collagen production. The lipopeptides were found to stimulate S. epidermidis growth, a microorganism very important for skin microbiota health. Therefore, both lipopeptides have interesting characteristics as active ingredients in antiaging cosmetic products.
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Mar 2026
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B21-High Throughput SAXS
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Diamond Proposal Number(s):
[36130]
Open Access
Abstract: Candida glabrata is the second leading cause of mortality in immunocompromised patients hospitalized for invasive candidiasis (IC). Several drugs have been available to treat this disease for decades, such as polyenes, azoles, echinocandins, flucytosine, and, in critical cases, amphotericin B. However, these antifungals’ constant and routine use have led to the development of resistance mechanisms, making the design and development of new drugs indispensable. The first step for the design and subsequent synthesis of a new chemical molecule as a potential antifungal is the identification of new therapeutic targets. In that pathway, our working group has identified moonlight-like cell wall proteins (CWPs) in different Candida species that can act as potential antifungal targets. One of these moonlight-like CWPs is phosphoglycerate kinase (Pgk) from C. glabrata. Once Pgk was identified as a potential therapeutic target in different human pathogens, the first step to perform drug design against this moonlight-like CWP was the elucidation of the three-dimensional (3D) structure since the 3D structure is key to understanding the interactions between a drug candidate and its target at the molecular level. In the present work, we aimed to elucidate the 3D structure of C. glabrata Pgk. To elucidate the 3D structure of this protein, the recombinant protein was expressed, purified, and structurally resolved by means of a structural analysis by small-angle X-ray scattering (SAXS). Additionally, in order to evaluate its potential as a therapeutic target, we have performed molecular docking studies and enzymatic activity assays with pure Pgk using known antifungals amphotericin B, nystatin, and fluconazole and with the new plausible drugs, such as nilotinib and netupitant. Our results showed some similarities and differences with orthologous Pgk proteins from other organisms, which was expected since Pgk has been observed to have evolved in the kingdoms of life. Molecular docking studies showed that Pgk interacts with all of the compounds tested. In enzyme activity assays, a change in the kinetic parameter Km on the enzyme Pgk was observed in response to its interaction with nilotinib, netupitant, and amphotericin B. Thus, our results allow us to propose Pgk from C. glabrata as a possible therapeutic target against candidiasis. We consider it essential to design and develop new molecules specifically targeting this enzyme, which will contribute to a decrease in mortality associated with IC and improve the patient’s quality of life.
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Jan 2026
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B22-Multimode InfraRed imaging And Microspectroscopy
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Open Access
Abstract: The design and development of controlled-release drug systems represent a pivotal area of research in modern pharmaceutical technologies. An ideal drug release system should precisely regulate both the release rate and duration of the drug, thereby enhancing therapeutic efficacy, reducing dose frequency, and minimizing adverse effects. In recent years, nanomaterials have become integral to drug delivery, with nanotechnology focusing on the design and application of nanomaterials. Metal–organic frameworks (MOFs) have emerged as promising drug carriers due to their high specific surface area, tunable porosity, and selective adsorption capabilities. However, MOFs often exhibit limited thermal stability, susceptibility to degradation, and sensitivity to acidic and basic conditions. To address these limitations, the integration of MOFs with polymers has shown promising potential. MOF-polymer composites can enhance drug loading capacity, improve drug solubility, and provide greater thermal stability while mitigating adverse reactions. Polyurethane (PU) is widely employed as a drug carrier due to its unique chemical properties and biodegradability. However, PU alone may lead to issues such as burst drug release and vulnerability to fungal colonization. Consequently, MOF-PU composites have garnered significant attention as advanced drug carriers, leveraging the synergistic properties of both materials to overcome their individual limitations. This review explores the definition, preparation methods, advantages, and application domains of MOF-PU composites, with a particular emphasis on their role as drug carriers. The objective is to provide a comprehensive reference for ongoing and future research into the utilization of MOF-PU composites in drug delivery systems.
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Sep 2025
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I22-Small angle scattering & Diffraction
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Diamond Proposal Number(s):
[33748, 35376]
Open Access
Abstract: We report that self-supporting mesoporous platinum 3D nanowires with a single diamond (SD) morphology and a high specific surface area of 40.4 m2 g–1 demonstrated enhanced stability toward the oxygen reduction reaction (ORR). These were found to be superior to commercially available carbon-supported Pt nanoparticles (Pt/C). After 1000 potential cycles, there was a 21% loss in surface area for SD-Pt, as compared with a 40.3% loss for Pt/C with no reduction in their half-wave potential (measured at J = 3.0 mA cm–2), whereas the Pt/C catalyst showed a 11.9 mV decrease. Our findings revealed that our SD-Pt thin films also exhibited excellent ORR activity, which offers significant potential for their application as high-performance cathode materials in alkaline fuel cells.
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Feb 2025
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I03-Macromolecular Crystallography
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Open Access
Abstract: The discovery of novel plastic degrading enzymes commonly relies on comparing features of the primary sequence to those of known plastic degrading enzymes. However, this approach cannot always guarantee success. This is exemplified by the different degradation rates of the two polymers poly(ethylene terephthalate) (PET) and polybutylene succinate (PBS) by two hydrolases: IsPETase from Ideonella sakaiensis and AdCut from Acidovorax delafieldii. Despite the enzymes showing a very high sequence identity of 82%, IsPETase shows significant hydrolysis activity for both polymers, whereas AdCut only shows significant hydrolysis activity for PBS. By solving the structure of AdCut using X-ray crystallography, and using this as the basis for computer simulations, comparisons are made between the differences in the calculated binding geometries and the catalytic results obtained from biochemical experiments. The results reveal that the low activity of AdCut toward PET can be explained by the low sampling of the productive conformation observed in the simulations. While the active site serine in IsPETase can closely encounter the PET carbonyl carbon, in AdCut it cannot: a feature that can be attributed to the shape of the catalytic binding pocket. These results yield an important insight into the design requirements for novel plastic degrading enzymes, as well as showing that computational methods can be used as a valuable tool in understanding the molecular basis for different hydrolysis activities in homologous polyesterase enzymes.
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Oct 2024
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I22-Small angle scattering & Diffraction
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Diamond Proposal Number(s):
[28806]
Open Access
Abstract: The influence of surfactant, cross-linker, and initiator on the final structure and thermoresponse of poly(N-isopropylmethacrylamide) (pNIPMAM) microgels was evaluated. The goals were to control particle size (into the nanorange) and transition temperature (across the physiologically accessible range). The concentration of the reactants used in the synthesis was varied, except for the monomer, which was kept constant. The thermoresponsive suspensions formed were characterized by dynamic light scattering, small-angle X-ray scattering, atomic force microscopy, and rheology. Increasing surfactant, sodium dodecyl sulfate content, produced smaller microgels, as expected, into the nanorange and with greater internal entanglement, but with no change in phase transition temperature (LCST), which is contrary to previous reports. Increasing cross-linker, N,N-methylenebis acrylamide, content had no impact on particle size but reduced particle deformability and, again contrary to previous reports of decreases, progressively increased the LCST from 39 to 46 °C. The unusual LCST trends were confirmed using different rheological techniques. Initiator, potassium persulfate, content was found to weakly influence the outcomes. An optimized content was identified that provides functional nanogels in the 100 nm (swollen) size range with controlled LCST, just above physiological temperature. The study contributes chemistry-derived design rules for thermally responsive colloidal particles with physiologically accessible LCST for a variety of biomedical and soft robotics applications.
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Aug 2024
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