Probing a Silent Metal: A Combined X-ray Absorption and Emission Spectroscopic Study of Biologically Relevant Zinc Complexes

Valence-to-core X-ray emission spectroscopy of transition metal tetrahalides: mechanisms governing intensities

Valence-to-core (VtC) X-ray emission spectroscopy offers the opportunity to probe the valence electronic structure of a system filtered by selection rules. From this, the nature of its ligands can be inferred. While a preceding 1s ionization creates a core hole, in VtC XES this core hole is filled with electrons from mainly ligand based orbitals. In this work, we investigated the trends in the observed VtC intensities for a series of transition metal halides, which spans the first row transition metals from manganese to copper. Further, with the aid of computational studies, we corroborated these trends and identified the mechanisms and factors that dictate the observed intensity trends. Small amounts of metal p contribution to the ligand orbitals are known to give rise to intensity of a VtC transition. By employing an LCAO (linear combination of atomic orbitals) approach, we were able to assess the amount of metal p contribution to the ligand molecular orbitals, as well as the role of the transition dipole moment and correlate these factors to the experimentally observed intensities. Finally, by employing an ano (atomic natural orbital) basis set within the calculations, the nature of the metal p contribution (3p vs. 4p) was qualitatively assessed and their trends discussed within the same transition metal halide series.

X-ray absorption and emission spectroscopy of N2S2 Cu(II)/(III) complexes

This study investigates the influence of ligand charge on transition energies in a series of CuN2S2 complexes based on dithiocarbazate Schiff base ligands using Cu K-edge X-ray absorption spectroscopy (XAS) and Kβ valence-to-core (VtC) X-ray emission spectroscopy (XES). By comparing the formally Cu(II) complexes [CuII(HL1)] (HL12- = dimethyl pentane-2,4-diylidenebis[carbonodithiohydrazonate]) and [CuII(HL2)] (HL22- = dibenzyl pentane-2,4-diylidenebis[carbonodithiohydrazonate]) and the formally Cu(III) complex [CuIII(L2)], distinct changes in transition energies are observed, primarily attributed to the metal oxidation state. Density functional theory (DFT) calculations demonstrate how an increased negative charge on the deprotonated L23- ligand stabilizes the Cu(III) center through enhanced charge donation, modulating the core transition energies. Overall, significant shifts to higher energies are noted upon metal oxidation, emphasizing the importance of scrutinizing ligand structure in XAS/VtC XES analysis. The data further support the redox-innocent role of the Schiff base ligands and underscore the criticality of ligand protonation levels in future spectroscopic studies, particularly for catalytic intermediates. The combined XAS-VtC XES methodology validates the Cu(III) oxidation state assignment while offering insights into ligand protonation effects on core-level spectroscopic transitions.

A fluorescence based dual sensor for Zn2+ and PO43- and the application of soft computing methods to predict machine learning outcomes

A phenolphthalein-based Schiff base, 3,3-bis-{4-hydroxy-3-[(pyridine-2-ylmethylimino)-methyl]-phenyl}-3H-isobenzofuran-1-one (PAP), has been synthesized and used for selective fluorescence 'turn on' and 'turn off' sensing of Zn2+ and PO43- respectively. The limit of detection using the 3σ method for Zn2+ is found to be 19.3 nM and that for PO43- is 8.3 μM. The sensing mechanism of PAP for Zn2+ ions has been explained by 1H NMR, 13C NMR, TRPL, ESI-MS, FT-IR, and DFT based calculations. Taking advantage of this fluorescence 'on-off' behavior of PAP in the sequential presence of Zn2+ and PO43- a two input fuzzy logic (FL) operation has been constructed. The chemosensor PAP can thus act as a metal ion and anion responsive molecular switch, and its corresponding emission intensity is used to mimic numerous FL functions. To replace various expensive, time-consuming experimental procedures, we implemented machine learning soft computing tools, such as fuzzy-logic, artificial neural networks (ANNs), and adaptive neuro-fuzzy inference systems (ANFIS), to correlate as well as predict the fluorescence intensity in the presence of any equivalent ratio of Zn2+ and PO43-. The statistical performance measures (MSE and RMSE, for example) show that the projected values of the cation and anion sensing data by the ANFIS network are the best and closer to the experimental values.

Aspergillus fumigatus ZrfC Zn(II) transporter scavengers zincophore-bound Zn(II)

Aspergillus fumigatus is an opportunistic pathogen that is able to invade and grow in the lungs of immunosuppressed patients and cause invasive pulmonary aspergillosis. The concentration of free Zn(II) in living tissues is much lower than that required for optimal fungal growth; thus, to obtain Zn(II) from the host, Aspergillus fumigatus uses highly specified Zn(II) transporters: ZrfA, ZrfB and ZrfC. The ZrfC transporter plays the main role in Zn(II) acquisition from the host in neutral and mildly alkaline environment via interacting with the secreted Aspf2 zincophore. Understanding the Aspf2-ZrfC interactions is therefore necessary for explaining the process of Zn(II) acquisition by Aspergillus fumigatus, and identifying Zn(II) binding sites in its transporter and describing the thermodynamics of such binding are the fundamental steps to achieve this goal. We focus on two probable ZrfC Zn(II) binding sites and show that the Ac-MNCHFHAGVEHCIGAGESESGSSQ-NH2 region binds Zn(II) with higher affinity than the Ac-TGCHSHGS-NH2 one and that this binding is much stronger than the binding of Zn(II) to the Aspf2 zincophore, allowing efficient Zn(II) transport from the Aspf2 zincophore to the ZrfC transporter. The same ZrfC fragments also able to bind Ni(II), another metal ion essential for fungi that could also compete with Zn(II) binding, with comparable affinity.

Differentiated Zn(II) binding affinities in animal, plant, and bacterial metallothioneins define their zinc buffering capacity at physiological pZn

Metallothioneins (MTs) are small, Cys-rich proteins present in various but not all organisms, from bacteria to humans. They participate in zinc and copper metabolism, toxic metals detoxification, and protection against reactive species. Structurally, they contain one or multiple domains, capable of binding a variable number of metal ions. For experimental convenience, biochemical characterization of MTs is mainly performed on Cd(II)-loaded proteins, frequently omitting or limiting Zn(II) binding features and related functions. Here, by choosing 10 MTs with relatively well-characterized structures from animals, plants, and bacteria, we focused on poorly investigated Zn(II)-to-protein affinities, stability-structure relations, and the speciation of individual complexes. For that purpose, MTs were characterized in terms of stoichiometry, pH-dependent Zn(II) binding, and competition with chromogenic and fluorescent probes. To shed more light on protein folding and its relation with Zn(II) affinity, reactivity of variously Zn(II)-loaded MTs was studied by (5,5'-dithiobis(2-nitrobenzoic acid) oxidation in the presence of mild chelators. The results show that animal and plant MTs, despite their architectural differences, demonstrate the same affinities to Zn(II), varying from nano- to low picomolar range. Bacterial MTs bind Zn(II) more tightly but, importantly, with different affinities from low picomolar to low femtomolar range. The presence of weak, moderate, and tight zinc sites is related to the folding mechanisms and internal electrostatic interactions. Differentiated affinities of all MTs define their zinc buffering capacity required for Zn(II) donation and acceptance at various free Zn(II) concentrations (pZn levels). The data demonstrate critical roles of individual Zn(II)-depleted MT species in zinc buffering processes.

Watching Excited State Dynamics with Optical and X-ray Probes: The Excited State Dynamics of Aquocobalamin and Hydroxocobalamin

Femtosecond time-resolved X-ray absorption (XANES) at the Co K-edge, X-ray emission (XES) in the Co Kβ and valence-to-core regions, and broadband UV-vis transient absorption are combined to probe the femtosecond to picosecond sequential atomic and electronic dynamics following photoexcitation of two vitamin B₁₂ compounds, hydroxocobalamin and aquocobalamin. Polarized XANES difference spectra allow identification of sequential structural evolution involving first the equatorial and then the axial ligands, with the latter showing rapid coherent bond elongation to the outer turning point of the excited state potential followed by recoil to a relaxed excited state structure. Time-resolved XES, especially in the valence-to-core region, along with polarized optical transient absorption suggests that the recoil results in the formation of a metal-centered excited state with a lifetime of 2-5 ps. This combination of methods provides a uniquely powerful tool to probe the electronic and structural dynamics of photoactive transition-metal complexes and will be applicable to a wide variety of systems.

Following a Silent Metal Ion: A Combined X-ray Absorption and Nuclear Magnetic Resonance Spectroscopic Study of the Zn2+ Cation Dissipative Translocation between Two Different Ligands

The dissipative translocation of the Zn²⁺ ion between two prototypical coordination complexes has been investigated by combining X-ray absorption and ¹H NMR spectroscopy. An integrated experimental and theoretical approach, based on state-of-the-art Multivariate Curve Resolution and DFT based theoretical analyses, is presented as a means to understand the concentration time evolution of all relevant Zn and organic species in the investigated processes, and accurately characterize the solution structures of the key metal coordination complexes. Specifically, we investigate the dissipative translocation of the Zn²⁺ cation from hexaaza-18-crown-6 to two terpyridine moieties and back again to hexaaza-18-crown-6 using 2-cyano-2-phenylpropanoic acid and its para-chloro derivative as fuels. Our interdisciplinary approach has been proven to be a valuable tool to shed light on reactive systems containing metal ions that are silent to other spectroscopic methods. These combined experimental approaches will enable future applications to chemical and biological systems in a predictive manner.

Combining Valence-to-Core X-ray Emission and Cu K-edge X-ray Absorption Spectroscopies to Experimentally Assess Oxidation State in Organometallic Cu(I)/(II)/(III) Complexes

A series of organometallic copper complexes in formal oxidation states ranging from +1 to +3 have been characterized by a combination of Cu K-edge X-ray absorption (XAS) and Cu Kβ valence-to-core X-ray emission spectroscopies (VtC XES). Each formal oxidation state exhibits distinctly different XAS and VtC XES transition energies due to the differences in the Cu Z_eff, concomitant with changes in physical oxidation state from +1 to +2 to +3. Herein, we demonstrate the sensitivity of XAS and VtC XES to the physical oxidation states of a series of N-heterocyclic carbene (NHC) ligated organocopper complexes. We then extend these methods to the study of the [Cu(CF₃)₄]⁻ ion. Complemented by computational methods, the observed spectral transitions are correlated with the electronic structure of the complexes and the Cu Z_eff. These calculations demonstrate that a contraction of the Cu 1s orbitals to deeper binding energy upon oxidation of the Cu center manifests spectroscopically as a stepped increase in the energy of both XAS and Kβ_2,5 emission features with increasing formal oxidation state within the [Cun+(NHC₂)]ⁿ⁺ series. The newly synthesized Cu(III) cation [Cu^III(NHC₄)]³⁺ exhibits spectroscopic features and an electronic structure remarkably similar to [Cu(CF₃)₄]⁻, supporting a physical oxidation state assignment of low-spin d⁸ Cu(III) for [Cu(CF₃)₄]⁻. Combining XAS and VtC XES further demonstrates the necessity of combining multiple spectroscopies when investigating the electronic structures of highly covalent copper complexes, providing a template for future investigations into both synthetic and biological metal centers.

A review of the “metallome” within neurons and glia, as revealed by elemental mapping of brain tissue

It is now well established that transition metals, such as Iron (Fe), Copper (Cu), and Zinc (Zn) are necessary for healthy brain function. Although Fe, Cu, and Zn are essential to the brain, imbalances in the amount, distribution, or chemical form ("metallome") of these metals is linked to the pathology of numerous brain diseases or disorders. Despite the known importance of metal ions for both brain health and disease, the metallome that exists within specific types of brain cells is yet to be fully characterised. The aim of this mini-review is to present an overview of the current knowledge of the metallome found within specific brain cells (oligodendrocytes, astrocytes, microglia, and neurons), as revealed by direct elemental mapping techniques. It is hoped this review will foster continued research using direct elemental mapping techniques to fully characterise the brain cell metallome.

Aging and Charge Compensation Effects of the Rechargeable Aqueous Zinc/Copper Hexacyanoferrate Battery Elucidated Using In Situ X-ray Techniques

The zinc/copper hexacyanoferrate (Zn/CuHCF) cell has gained attention as an aqueous rechargeable zinc-ion battery (ZIB) owing to its open framework, excellent rate capability, and high safety. However, both the Zn anode and the CuHCF cathode show unavoidable signs of aging during cycling, though the underlying mechanisms have remained somewhat ambiguous. Here, we present an in-depth study of the CuHCF cathode by employing various X-ray spectroscopic techniques. This allows us to distinguish between structure-related aging effects and charge compensation processes associated with electroactive metal centers upon Zn²⁺ ion insertion/deinsertion. By combining high-angle annular dark-field-scanning electron transmission microscopy, X-ray absorption spectroscopy (XAS), X-ray photoelectron spectroscopy, and elemental analysis, we reconstruct the picture of both the bulk and the surface. First, we identify a set of previously debated X-ray diffraction peaks appearing at early stages of cycling (below 200 cycles) in CuHCF. Our data suggest that these peaks are unrelated to hypothetical Zn_xCu_1-xHCF phases or to oxidic phases, but are caused by partial intercalation of ZnSO₄ into graphitic carbon. We further conclude that Cu is the unstable species during aging, whose dissolution is significant at the surface of the CuHCF particles. This triggers Zn²⁺ ions to enter newly formed Cu vacancies, in addition to native Fe vacancies already present in the bulk, which causes a reduction of nearby metal sites. This is distinct from the charge compensation process where both the Cu²⁺/Cu⁺ and Fe³⁺/Fe²⁺ redox couples participate throughout the bulk. By tracking the K-edge fluorescence using operando XAS coupled with cyclic voltammetry, we successfully link the aging effect to the activation of the Fe³⁺/Fe²⁺ redox couple as a consequence of Cu dissolution. This explains the progressive increase in the voltage of the charge/discharge plateaus upon repeated cycling. We also find that SO₄^2- anions reversibly insert into CuHCF during charge. Our work clarifies several intriguing structural and redox-mediated aging mechanisms in the CuHCF cathode and pinpoints parameters that correlate with the performance, which will hold importance for the development of future Prussian blue analogue-type cathodes for aqueous rechargeable ZIBs.

Impact of Single-Pulse, Low-Intensity Laser Post-Processing on Structure and Activity of Mesostructured Cobalt Oxide for the Oxygen Evolution Reaction

Herein, we report nanosecond, single-pulse laser post-processing (PLPP) in a liquid flat jet with precise control of the applied laser intensity to tune structure, defect sites, and the oxygen evolution reaction (OER) activity of mesostructured Co3O4. High-resolution X-ray diffraction (XRD), Raman, and X-ray photoelectron spectroscopy (XPS) are consistent with the formation of cobalt vacancies at tetrahedral sites and an increase in the lattice parameter of Co3O4 after the laser treatment. X-ray absorption spectroscopy (XAS) and X-ray emission spectroscopy (XES) further reveal increased disorder in the structure and a slight decrease in the average oxidation state of the cobalt oxide. Molecular dynamics simulation confirms the surface restructuring upon laser post-treatment on Co3O4. Importantly, the defect-induced PLPP was shown to lower the charge transfer resistance and boost the oxygen evolution activity of Co3O4. For the optimized sample, a 2-fold increment of current density at 1.7 V vs RHE is obtained and the overpotential at 10 mA/cm2 decreases remarkably from 405 to 357 mV compared to pristine Co3O4. Post-mortem characterization reveals that the material retains its activity, morphology, and phase structure after a prolonged stability test.

Structural Elucidation, Aggregation, and Dynamic Behaviour of N,N,N,N ‐Copper(I) Schiff Base Complexes in Solid and in Solution: A Combined NMR, X‐ray Spectroscopic and Crystallographic Investigation

A series of Cu(I) complexes of bidentate or tetradentate Schiff base ligands bearing either 1‐H‐imidazole or pyridine moieties were synthesized. The complexes were studied by a combination of NMR and X‐ray spectroscopic techniques. The differences between the imidazole‐ and pyridine‐based ligands were examined by ¹H, ¹³C and ¹⁵N NMR spectroscopy. The magnitude of the ¹⁵N_imine coordination shifts was found to be strongly affected by the nature of the heterocycle in the complexes. These trends showed good correlation with the obtained Cu−N_imine bond lengths from single‐crystal X‐ray diffraction measurements. Variable‐temperature NMR experiments, in combination with diffusion ordered spectroscopy (DOSY) revealed that one of the complexes underwent a temperature‐dependent interconversion between a monomer, a dimer and a higher aggregate. The complexes bearing tetradentate imidazole ligands were further studied using Cu K‐edge XAS and VtC XES, where DFT‐assisted assignment of spectral features suggested that these complexes may form polynuclear oligomers in solid state. Additionally, the Cu(II) analogue of one of the complexes was incorporated into a metal‐organic framework (MOF) as a way to obtain discrete, mononuclear complexes in the solid state.

Phosphorus Kβ X-ray emission spectroscopy detects non-covalent interactions of phosphate biomolecules in situ

Phosphorus is ubiquitous in biochemistry, being found in the phosphate groups of nucleic acids and the energy-transferring system of adenine nucleotides (e.g. ATP). Kβ X-ray emission spectroscopy (XES) of phosphorus has been largely unexplored, with no previous applications to biomolecules. Here, the potential of P Kβ XES to study phosphate-containing biomolecules, including ATP and NADPH, is evaluated, as is the application of the technique to aqueous solution samples. P Kβ spectra offer a detailed picture of phosphate valence electronic structure, reporting on subtle non-covalent effects, such as hydrogen bonding and ionic interactions, that are key to enzymatic catalysis. Spectral features are interpreted using density functional theory (DFT) calculations, and potential applications to the study of biological energy conversion are highlighted.

Phosphorus X-ray emission spectroscopy probes non-covalent interactions and electronic structure of phosphate biomolecules in both solid and solution samples.

Revealing differences in the chemical form of zinc in brain tissue using K-edge X-ray absorption near-edge structure spectroscopy

Zinc is a prominent trace metal required for normal memory function. Memory loss and cognitive decline during natural ageing and neurodegenerative disease have been associated with altered brain-Zn homeostasis. Yet, the exact chemical pathways through which Zn influences memory function during health, natural ageing, or neurodegenerative disease remain unknown. The gap in the literature may in part be due to the difficulty to simultaneously image, and therefore, study the different chemical forms of Zn within the brain (or biological samples in general). To this extent, we have begun developing and optimising protocols that incorporate X-ray absorption near-edge structure (XANES) spectroscopic analysis of tissue at the Zn K-edge as an analytical tool to study Zn speciation in the brain. XANES is ideally suited for this task as all chemical forms of Zn are detected, the technique requires minimal sample preparation that may otherwise redistribute or alter the chemical form of Zn, and the Zn K-edge has known sensitivity to coordination geometry and ligand type. Herein, we report our initial results where we fit K-edge spectra collected from micro-dissected flash-frozen brain tissue, to a spectral library prepared from standard solutions, to demonstrate differences in the chemical form of Zn that exist between two brain regions, the hippocampus and cerebellum. Lastly, we have used an X-ray microprobe to demonstrate differences in Zn speciation within sub-regions of thin air-dried sections of the murine hippocampus; but, the corresponding results highlight that the chemical form of Zn is easily perturbed by sample preparation such as tissue sectioning or air-drying, which must be a critical consideration for future work.