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Accurate analysis of the rich information contained within X-ray spectra usually calls for detailed electronic structure theory simulations. However, density functional theory (DFT), time-dependent DFT and many-body perturbation theory calculations increasingly require the use of advanced codes running on high-performance computing (HPC) facilities. Consequently, many researchers who would like to augment their experimental work with such simulations are hampered by the compounding of nontrivial knowledge requirements, specialist training and significant time investment. To this end, we present Web-CONEXS, an intuitive graphical web application for democratizing electronic structure theory simulations. Web-CONEXS generates and submits simulation workflows for theoretical X-ray absorption and X-ray emission spectroscopy to a remote computing cluster. In the present form, Web-CONEXS interfaces with three software packages: ORCA, FDMNES and Quantum ESPRESSO, and an extensive materials database courtesy of the Materials Project API. These software packages have been selected to model diverse materials and properties. Web-CONEXS has been conceived with the novice user in mind; job submission is limited to a subset of simulation parameters. This ensures that much of the simulation complexity is lifted and preliminary theoretical results are generated faster. Web-CONEXS can be leveraged to support beam time proposals and serve as a platform for preliminary analysis of experimental data.
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Excited state dynamics play a critical role across a broad range of scientific fields. Importantly, the highly non-equilibrium nature of the states generated by photoexcitation means that excited state simulations should usually include an accurate description of the coupled electronic-nuclear motion, which often requires solving the time-dependent Schrödinger equation (TDSE). One of the biggest challenges for these simulations is the requirement to calculate the PES over which the nuclei evolve. An effective approach for addressing this challenge is to use the approximate linear vibronic coupling (LVC) Hamiltonian, which enables a model potential to be parameterised using relatively few quantum chemistry calculations. However, this approach is only valid provided there are no large amplitude motions in the excited state dynamics. In this paper we introduce and deploy a metric, the global anharmonicity parameter (GAP), which can be used to assess the accuracy of an LVC potential. Following its derivation, we illustrate its utility by applying it to three molecules exhibiting different rigidity in their excited states.
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Revolutionary developments in ultrafast light source technology are enabling experimental spectroscopists to probe the structural dynamics of molecules and materials on the femtosecond timescale. The capacity to investigate ultrafast processes afforded by these resources accordingly inspires theoreticians to carry out high-level simulations which facilitate the interpretation of the underlying dynamics probed during these ultrafast experiments. In this Article, we implement a deep neural network (DNN) to convert excited-state molecular dynamics simulations into time-resolved spectroscopic signals. Our DNN is trained on-the-fly from first-principles theoretical data obtained from a set of time-evolving molecular dynamics. The train-test process iterates for each time-step of the dynamics data until the network can predict spectra with sufficient accuracy to replace the computationally intensive quantum chemistry calculations required to produce them, at which point it simulates the time-resolved spectra for longer timescales. The potential of this approach is demonstrated by probing dynamics of the ring opening of 1,2-dithiane using sulphur K-edge X-ray absorption spectroscopy. The benefits of this strategy will be more markedly apparent for simulations of larger systems which will exhibit a more notable computational burden, making this approach applicable to the study of a diverse range of complex chemical dynamics.
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X-ray absorption spectroscopy at the L2/3 edge can be used to obtain detailed information about the local electronic and geometric structure of transition metal complexes. By virtue of the dipole selection rules, the transition metal L2/3 edge usually exhibits two distinct spectral regions: (i) the "white line", which is dominated by bound electronic transitions from metal-centred 2p orbitals into unoccupied orbitals with d character; the intensity and shape of this band consequently reflects the d density of states (d-DOS), which is strongly modulated by mixing with ligand orbitals involved in chemical bonding, and (ii) the post-edge, where oscillations encode the local geometric structure around the X-ray absorption site. In this Article, we extend our recently-developed XANESNET deep neural network (DNN) beyond the K-edge to predict X-ray absorption spectra at the Pt L2/3 edge. We demonstrate that XANESNET is able to predict Pt L2/3 -edge X-ray absorption spectra, including both the parts containing electronic and geometric structural information. The performance of our DNN in practical situations is demonstrated by application to two Pt complexes, and by simulating the transient spectrum of a photoexcited dimeric Pt complex. Our discussion includes an analysis of the feature importance in our DNN which demonstrates the role of key features and assists with interpreting the performance of the network.
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Complejos de Coordinación , Elementos de Transición , Complejos de Coordinación/química , Redes Neurales de la Computación , Espectroscopía de Absorción de Rayos X , Rayos XRESUMEN
We performed a time-gated laser-spectroscopy study in a set of heavy-atom free single BODIPY fluorophores, supported by accurate, excited-state computational simulations of the key low-lying excited states in these chromophores. Despite the strong fluorescence of these emitters, we observed a significant fraction of time-delayed (microseconds scale) emission associated with processes that involved passage through the triplet manifold. The accuracy of the predictions of the energy arrangement and electronic nature of the low-lying singlet and triplet excited states meant that an unambiguous assignment of the main deactivation pathways, including thermally activated delayed fluorescence and/or room temperature phosphorescence, was possible. The observation of triplet state formation indicates a breakthrough in the "classic" interpretation of the photophysical properties of the renowned BODIPY and its derivatives.
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Compuestos de Boro , Colorantes Fluorescentes , Compuestos de Boro/química , Análisis EspectralRESUMEN
Many chemical and biological reactions, including ligand exchange processes, require thermal energy for the reactants to overcome a transition barrier and reach the product state. Temperature-jump (T-jump) spectroscopy uses a near-infrared (NIR) pulse to rapidly heat a sample, offering an approach for triggering these processes and directly accessing thermally-activated pathways. However, thermal activation inherently increases the disorder of the system under study and, as a consequence, can make quantitative interpretations of structural changes challenging. In this Article, we optimise a deep neural network (DNN) for the instantaneous prediction of Co K-edge X-ray absorption near-edge structure (XANES) spectra. We apply our DNN to analyse T-jump pump/X-ray probe data pertaining to the ligand exchange processes and solvation dynamics of Co2+ in chlorinated aqueous solution. Our analysis is greatly facilitated by machine learning, as our DNN is able to predict quickly and cost-effectively the XANES spectra of thousands of geometric configurations sampled from ab initio molecular dynamics (MD) using nothing more than the local geometric environment around the X-ray absorption site. We identify directly the structural changes following the T-jump, which are dominated by sample heating and a commensurate increase in the Debye-Waller factor.
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We report the characterization of rotaxanes based on a carbazole-benzophenone thermally activated delayed fluorescence luminophore. We find that the mechanical bond leads to an improvement in key photophysical properties of the emitter, notably an increase in photoluminescence quantum yield and a decrease in the energy difference between singlet and triplet states, as well as fine tuning of the emission wavelength, a feat that is difficult to achieve when using covalently bound substituents. Computational simulations, supported by X-ray crystallography, suggest that this tuning of properties occurs due to weak interactions between the axle and the macrocycle that are enforced by the mechanical bond. This work highlights the benefits of using the mechanical bond to refine existing luminophores, providing a new avenue for emitter optimization that can ultimately increase the performance of these molecules.
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In this article recent progress in the development of molecules exhibiting Thermally Activated Delayed Fluorescence (TADF) is discussed with a particular focus upon their application as emitters in highly efficient organic light emitting diodes (OLEDs). The key aspects controlling the desirable functional properties, e. g. fast intersystem crossing, high radiative rate and unity quantum yield, are introduced with a particular focus upon the competition between the key requirements needed to achieve high performance OLEDs. The design rules required for organic and metal organic materials are discussed, and the correlation between them outlined. Recent progress towards understanding the influence of the interaction between a molecule and its environment are explained as is the role of the mechanism for excited state formation in OLEDs. Finally, all of these aspects are combined to discuss the ability to implement high level design rules for achieving higher quality materials for commercial applications. This article highlights the significant progress that has been made in recent years, but also outlines the significant challenges which persist to achieve a full understanding of the TADF mechanism and improve the stability and performance of these materials.
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Intersystem crossing (ISC), formally forbidden within nonrelativistic quantum theory, is the mechanism by which a molecule changes its spin state. It plays an important role in the excited state decay dynamics of many molecular systems and not just those containing heavy elements. In the simplest case, ISC is driven by direct spin-orbit coupling between two states of different multiplicities. This coupling is usually assumed to remain unchanged by vibrational motion. It is also often presumed that spin-allowed radiationless transitions, i.e. internal conversion, and the nonadiabatic coupling that drives them, can be considered separately from ISC and spin-orbit coupling owing to the vastly different time scales upon which these processes are assumed to occur. However, these assumptions are too restrictive. Indeed, the strong mixing brought about by the simultaneous presence of nonadiabatic and spin-orbit coupling means that often the spin, electronic, and vibrational dynamics cannot be described independently. Instead of considering a simple ladder of states, as depicted in a Jablonski diagram, one must consider the more complicated spin-vibronic levels. Despite the basic ideas being outlined in the 1960s, it is only with the advent of high-level theory and femtosecond spectroscopy that the importance of the spin-vibronic mechanism for ISC in both fundamental as well as applied research fields has been revealed with significant impact across chemistry, physics, and biology. In this review article, we present the theory and fundamental principles of the spin-vibronic mechanism for ISC. This is followed by empirical rules to estimate the rate of ISC within this regime. The most recent developments in experimental techniques, theoretical methods, and models for the spin-vibronic mechanism are discussed. These concepts are subsequently illustrated with examples, including the ISC mechanisms in transition metal complexes, small organic molecules, and organic chromophores.
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The excited state properties and intersystem crossing dynamics of a series of donor-bridge-acceptor carbene metal-amides based upon the coinage metals Cu, Ag, Au, are investigated using quantum dynamics simulations and supported by photophysical characterisation. The simulated intersystem rates are consistent with experimental observations making it possible to provide a detailed interpretation of the excited state dynamics which ultimately control their functional properties. It is demonstrated that for all complexes there is a competition between the direct intersystem crossing occurring between the 1CT and 3CT states and indirect pathways which couple to an intermediate locally excited ππ* triplet state (3LE) on either the donor or acceptor ligands. The energy of the 3LE states decreases as the size of the metal decreases meaning that the indirect pathway plays an increasingly important role for the lighter metals. Importantly whenever the direct pathway is efficient, the presence of indirect pathways is detrimental to the overall rate of ISC as they provide a slower alternative pathway. Our results provide a detailed insight into the mechanism of intersystem crossing in these complexes and will greatly facilitate the design of new higher performing molecules.
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An important consideration when developing a deep neural network (DNN) for the prediction of molecular properties is the representation of the chemical space. Herein we explore the effect of the representation on the performance of our DNN engineered to predict Fe K-edge X-ray absorption near-edge structure (XANES) spectra, and address the question: How important is the choice of representation for the local environment around an arbitrary Fe absorption site? Using two popular representations of chemical space-the Coulomb matrix (CM) and pair-distribution/radial distribution curve (RDC)-we investigate the effect that the choice of representation has on the performance of our DNN. While CM and RDC featurisation are demonstrably robust descriptors, it is possible to obtain a smaller mean squared error (MSE) between the target and estimated XANES spectra when using RDC featurisation, and converge to this state a) faster and b) using fewer data samples. This is advantageous for future extension of our DNN to other X-ray absorption edges, and for reoptimisation of our DNN to reproduce results from higher levels of theory. In the latter case, dataset sizes will be limited more strongly by the resource-intensive nature of the underlying theoretical calculations.
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Biología Computacional/métodos , Aprendizaje Automático , Modelos Moleculares , Redes Neurales de la Computación , Espectroscopía de Absorción de Rayos XRESUMEN
Molecules and materials that absorb and/or emit light form a central part of our daily lives. Consequently, a description of their excited-state properties plays a crucial role in designing new molecules and materials with enhanced properties. Due to its favorable balance between high computational efficiency and accuracy, time-dependent density functional theory (TDDFT) is often a method of choice for characterizing these properties. However, within standard approximations to the exchange-correlation functional, it remains challenging to achieve a balanced description of all excited states, especially for those exhibiting charge-transfer (CT) characteristics. In this work, we have applied two approaches, namely, the optimal tuning and triplet tuning methods, for a nonempirical definition of range-separated functionals to improve the description of excited states within TDDFT. This is applied to study the CT properties of two thermally activated delayed fluorescence emitters, namely, PTZ-DBTO2 and TAT-3DBTO2 . We demonstrate the connection between the two methods, the performance of each in the presence on multiple excited states of different characters and the geometry dependence of each method especially relevant in the context of developing size-consistent potential energy surfaces. © 2019 Wiley Periodicals, Inc.
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Simulation of the ultrafast excited-state dynamics and elastic X-ray scattering of the [Fe(bmip)2]2+ [bmip = 2,6-bis(3-methyl-imidazole-1-ylidine)-4-pyridine] complex is presented and analyzed. We employ quantum wavepacket dynamics simulations on a 5-dimensional potential energy surface (PES) calculated by time-dependent density functional theory with 26 coupled diabatic states. The simulations are initiated by explicit inclusion of a time-dependent electromagnetic field. In the case of resonant excitation into singlet metal-to-ligand charge transfer (1MLCT) states, kinetic (exponential) population dynamics are observed with small nuclear motion. In agreement with transient optical absorption spectroscopy experiments, we observe a subpicosecond 1MLCT â 3MLCT intersystem crossing and a subsequent decay into triplet metal-centered (3MC) states on a picosecond time scale. The simulated time-resolved difference scattering signal is dominated by the 3MC component, for which the structural distortions are significant. On the other hand, excitation into 1MC states leads to ballistic (nonexponential) population dynamics with strong nuclear motion. The reason for these ballistic dynamics is that in this case, the excitation occurs into a nonequilibrium region, i.e., far from the minimum of the 1MC PES. This results in wavepacket dynamics along the principal breathing mode, which is clearly visible in both the population dynamics and difference scattering. Finally, the importance of decomposing the difference scattering into components by electronic states is highlighted, information which is not accessible from elastic X-ray scattering experiments.
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This article describes a convenient method for the synthesis of ONNO-type tetradentate 6,6'-bis(2-phenoxy)-2,2'-bipyridine (bipyridine bisphenolate, BpyBph) ligands and their platinum(II) complexes. The methodology includes the synthesis of 1,2,4-triazine precursors followed by their transformation to functionalized pyridines by the Boger reaction. Two complementary routes employing 3,3'- and 5,5'-bis-triazines allow a modification of the central pyridine rings in different positions, which was exemplified by the introduction of cyclopentene rings. The new ligands were used to prepare highly luminescent ONNO-type Pt(II) complexes. The position of the cyclopentene rings significantly influences the solubility and photophysical properties of these complexes. Derivatives with closely positioned cyclopentene rings are soluble in organic solvents and proved to be the best candidate for solution-processable organic light-emitting devices (OLEDs), showing efficient single-dopant candlelight electroluminescence.
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Diatomic ligands in hemoproteins and the way they bind to the active center are central to the protein's function. Using picosecond Fe K-edge X-ray absorption spectroscopy, we probe the NO-heme recombination kinetics with direct sensitivity to the Fe-NO binding after 532-nm photoexcitation of nitrosylmyoglobin (MbNO) in physiological solutions. The transients at 70 and 300 ps are identical, but they deviate from the difference between the static spectra of deoxymyoglobin and MbNO, showing the formation of an intermediate species. We propose the latter to be a six-coordinated domed species that is populated on a timescale of â¼ 200 ps by recombination with NO ligands. This work shows the feasibility of ultrafast pump-probe X-ray spectroscopic studies of proteins in physiological media, delivering insight into the electronic and geometric structure of the active center.
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Mioglobina/metabolismo , Óxido Nítrico/metabolismo , Análisis Espectral/métodos , Cinética , LigandosRESUMEN
Ferrous iron(II) hexacyanide in aqueous solutions is known to undergo photoionization and photoaquation reactions depending on the excitation wavelength. To investigate this wavelength dependence, we implemented ultrafast two-dimensional UV transient absorption spectroscopy, covering a range from 280 to 370 nm in both excitation and probing, along with UV pump/visible probe or time-resolved infrared (TRIR) transient absorption spectroscopy and density functional theory (DFT) calculations. As far as photoaquation is concerned, we find that excitation of the molecule leads to ultrafast intramolecular relaxation to the lowest triplet state of the [Fe(CN)6]4- complex, followed by its dissociation into CN- and [Fe(CN)5]3- fragments and partial geminate recombination, all within <0.5 ps. The subsequent time evolution is associated with the [Fe(CN)5]3- fragment going from a triplet square pyramidal geometry, to the lowest triplet trigonal bipyramidal state in 3-4 ps. This is the precursor to aquation, which occurs in â¼20 ps in H2O and D2O solutions, forming the [Fe(CN)5(H2O/D2O)]3- species, although some aquation also occurs during the 3-4 ps time scale. The aquated complex is observed to be stable up to the microsecond time scale. For excitation below 310 nm, the dominant channel is photooxidation with a minor aquation channel. The photoaquation reaction shows no excitation wavelength dependence up to 310 nm, that is, it reflects a Kasha Rule behavior. In contrast, the photooxidation yield increases with decreasing excitation wavelength. The various intermediates that appear in the TRIR experiments are identified with the help of DFT calculations. These results provide a clear example of the energy dependence of various reactive pathways and of the role of spin-states in the reactivity of metal complexes.
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A new family of cyclometallated gold(III) thiolato complexes based on pyrazine-centred pincer ligands has been prepared, (C^Npz ^C)AuSR, where C^Npz ^C=2,6-bis(4-But C6 H4 )pyrazine dianion and R=Ph (1), C6 H4 tBu-4 (2), 2-pyridyl (3), 1-naphthyl (1-Np, 4), 2-Np (5), quinolinyl (Quin, 6), 4-methylcoumarinyl (Coum, 7) and 1-adamantyl (8). The complexes were isolated as yellow to red solids in high yields using mild synthetic conditions. The single-crystal X-ray structures revealed that the colour of the deep-red solids is associated with the formation of a particular type of short (3.2-3.3â Å) intermolecular pyrazineâ â â pyrazine π-interactions. In some cases, yellow and red crystal polymorphs were formed; only the latter were emissive at room temperature. Combined NMR and UV/Vis techniques showed that the supramolecular π-stacking interactions persist in solution and give rise to intense deep-red photoluminescence. Monomeric molecules show vibronically structured green emissions at low temperature, assigned to ligand-based 3 IL(C^N^C) triplet emissions. By contrast, the unstructured red emissions correlate mainly with a 3 LLCT(SRâ{(C^Npz ^C)2 }) charge transfer transition from the thiolate ligand to the πâ â â π dimerized pyrazine. Unusually, the π-interactions can be influenced by sample treatment in solution, such that the emissions can switch reversibly from red to green. To our knowledge this is the first report of aggregation-enhanced emission in gold(III) chemistry.
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Understanding what influences the formation and lifetime of charge-separated states is key to developing photoelectrochemical devices. This paper describes the use of time-resolved infrared absorption spectroscopy (TRIR) to determine the structure and lifetime of the intermediates formed on photoexcitation of two organic donor-π-acceptor dyes adsorbed to the surface of NiO. The donor and π-linker of both dyes is triphenylamine and thiophene but the acceptors differ, maleonitrile (1) and bodipy (2). Despite their structural similarities, dye 1 outperforms 2 significantly in devices. Strong transient bands in the fingerprint region (1 and 2) and nitrile region (2300-2000 cm-1) for 1 enabled us to monitor the structure of the excited states in solution or adsorbed on NiO (in the absence and presence of electrolyte) and the corresponding kinetics, which are on a ps-ns timescale. The results are consistent with rapid (<1 ps) charge-transfer from NiO to the excited dye (1) to give exclusively the charge-separated state on the timescale of our measurements. Conversely, the TRIR experiments revealed that multiple species are present shortly after excitation of the bodipy chromophore in 2, which is electronically decoupled from the thiophene linker. In solution, excitation first populates the bodipy singlet excited state, followed by charge transfer from the triphenylamine to the bodipy. The presence and short lifetime (τ ≈ 30 ps) of the charge-transfer excited state when 2 is adsorbed on NiO (2|NiO) suggests that charge separation is slower and/or less efficient in 2|NiO than in 1|NiO. This is consistent with the difference in performance between the two dyes in dye-sensitized solar cells and photoelectrochemical water splitting devices. Compared to n-type materials such as TiO2, less is understood regarding electron transfer between dyes and p-type metal oxides such as NiO, but it is evident that fast charge-recombination presents a limit to the performance of photocathodes. This is also a major challenge to photocatalytic systems based on a "Z-scheme", where the catalysis takes place on a µs-s timescale.
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The combination of halogen- and hydrogen-bonding capabilities possessed by 4-bromopyrazole and 4-iodopyrazole has led to them being described as "magic bullets" for biochemical structure determination. Laser vaporisation was used to introduce each of these 4-halopyrazoles into an argon gas sample undergoing supersonic expansion prior to the recording of the rotational spectra of these molecules by chirped-pulse Fourier transform microwave spectroscopy. Data were obtained for four isotopologues of 4-bromopyrazole and two isotopologues of 4-iodopyrazole. Isotopic substitutions were achieved at the hydrogens attached to the pyrrolic nitrogen atoms of both 4-halopyrazoles and at the bromine atom of 4-bromopyrazole. The experimentally determined nuclear quadrupole coupling constants, χaa(X) and χbb(X)-χcc(X), of the halogen atoms (where X is the halogen atom) of each molecule are compared with the results of the ab initio calculations and those for a range of other halogen-containing molecules. It is concluded that each of 4-bromopyrazole and 4-iodopyrazole will form halogen bonds that are broadly comparable in strength to those formed by CH3X and CF3X.
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The biological influence of radiation on living matter has been studied for years; however, several questions about the detailed mechanism of radiation damage formation remain largely unanswered. Among all biomolecules exposed to radiation, DNA plays an important role because any damage to its molecular structure can affect the whole cell and may lead to chromosomal rearrangements resulting in genomic instability or cell death. To identify and characterize damage induced in the DNA sugar-phosphate backbone, in this work we performed x-ray absorption spectroscopy at the P K-edge on DNA irradiated with either UVA light or protons. By combining the experimental results with theoretical calculations, we were able to establish the types and relative ratio of lesions produced by both UVA and protons around the phosphorus atoms in DNA.