Equilibrist is a free, open-source platform for the quantitative analysis of chemical equilibria and kinetics. It runs in a local web browser, requires no installation, and uses a plain-text scripting language to specify reversible and irreversible reactions, polyprotic acid-base networks, and thermodynamic-cycle constraints. Five fitting modes cover species concentration, NMR shifts (fast exchange), NMR integrations (slow exchange), a mixed mode, and UV-vis/emission spectrophotometry, optimized by the L-BFGS-B and Nelder-Mead methods. A comprehensive statistical layer adds information criteria (AIC, AICc, BIC) with Akaike weights and a Fisher F-test for model selection, residual diagnostics (Durbin-Watson and Shapiro-Wilk statistics, Q-Q plot), and three uncertainty quantification families (bootstrap, jackknife, and Monte Carlo input propagation). Parameter identifiability is mapped by 1D and 2D RMSE profiles, sloppy-spectrum eigen decomposition, correlation heatmaps, t-tests, and a novel local sensitivity coefficient ξ. The combined diagnostics let the user move past R2 coefficients and Hessian standard errors to assess parameter estimates and the chemical model itself.
A series of homonuclear bimetallic organometallic complexes bearing two Au(I) atoms and two corannulene fragments have been synthesized, and their fullerene recognition properties were extensively studied in solution. The tether groups were diphosphine ligands with variable rigidity (namely, dppe, dppf, dppbenz, and xantphos) to cover a range of potential semisupported intramolecular aurophilic interactions. Experimental results showed that neither extreme flexibility nor rigidity favors fullerene binding, and in those cases where the metallophilic contact is present and assured by ligand design, this force might hinder the supramolecular assembly formation. Computational calculations clearly indicate that the aurophilic interaction is just another force that is playing a moderate role within the manifold forces involved in the recognition process. The most notable finding corresponded to host CAudppf, which exhibited the highest experimental performance toward fullerene binding within the studied family due to its good preorganization in a tweezer-like conformation despite the lack of proper aurophilic contact. Thorough theoretical studies strongly suggested that the Au(I)-Au(I) distance can be shortened upon complexation, effectively turning on the metallophilic interactions.
The binding affinities of 24 ammonium salts were determined by isothermal titration calorimetry (ITC). The affinities were predicted with three empirical models that do not invoke the macrocycle explicitly. Once head groups common to all guests are removed, and the remaining fragments are transferred from aqueous solution to a virtual gas phase, the free energy of transfer from the gas phase to the CB[7] cavity is correlated with (a) the dispersive component of their interaction with a non-polar, non-polarizable hard sphere fluid, (b) their free energy of solvation in tetramethylglycoluril, that mimics the main building block of CB[7], and (c) a sum of individual guest atom free energy contributions via multiple linear regression. The latter method, which simply correlates binding affinities with the guest molecular formulae, is the most precise and accurate one, except for tight-fitting guests, with mean absolute errors as low as 0.16 kcal mol-1, thereby rivaling experimental error (0.06 kcal mol-1 on average). Accuracy exceeds density functional theory calculations that treat the host explicitly.
A supramolecular complex acting as a molecular rotor was assembled from cucurbit[7]uril and a rigid, rod-shaped molecular anchor. This rotor was then anchored to the facets of a hexagonal tris(o-phenylenedioxy)cyclotriphosphazene matrix, forming a regular 2D array. Semi-empirical calculations revealed very low rotational barriers for the macrocyclic units within this array, suggesting smooth rotational motion and promising potential for future applications in dynamic molecular systems.
We report atomic-scale gating and visualization of local charge distribution within individual rare-earth-based molecular complexes on a metallic surface. The complexes are formed by a positively charged lanthanum ion coordinated to a (pcam)3 molecule and a negatively charged counterion trapped underneath via electrostatic interactions on a Au(111) surface. Local gating is performed by adding an additional negatively charged counterion to one side of the complex, which results in the redistribution of charges within the complex and a positive shift of the frontier orbitals. This is caused by the internal Stark effect induced by the added counterion. This effect is directly captured using tunneling spectroscopy and spectroscopic mapping at 5 K substrate temperature. The polarizability of the complex is corroborated by density functional theory and analytical calculations based on experimental findings. Furthermore, the influence of charge polarization on nearby complexes is investigated in a cluster purposely assembled using three complexes, which reveals maintaining the charge states as in single complexes. These findings will enable the design of robust charged rare-earth complexes to be tailored for potential solid-state applications.
Macrocycles that encapsulate two guests can self-sort those into homo- and heterodimers. We report here a family of self-sorting homobimetallic Pt(ii) terpyridyl acetylide dimers secured together with a pair of Cucurbit[8]uril macrocycles (CB[8]). The rigid bridging unit between both Pt centers introduces varying "hinge" angles, resulting in disparities in Pt-Pt distances in the heterodimers, and leads to recognition motif mismatch. We found that the self-sorting process can be quantified using a simple model, in which each complex behaves as a simple harmonic oscillator, whose heteroassembly tends to minimize geometry distorsions through C(aryl)-C 00000000000000000 00000000000000000 00000000000000000 01111111111111110 00000000000000000 01111111111111110 00000000000000000 01111111111111110 00000000000000000 00000000000000000 00000000000000000 C-Pt axis deformation.
Rare-earth complexes are vital for separation chemistry and useful in many advanced applications including emission and energy upconversion. Here, 2D rare-earth clusters having net charges are formed on a metal surface, enabling investigations of their structural and electronic properties on a one-cluster-at-a-time basis using scanning tunneling microscopy. While these ionic complexes are highly mobile on the surface at ≈100 K, their mobility is greatly reduced at 5 K and reveals stable and self-limiting clusters. In each cluster, a pair of charged rare-earth complexes formed by electrostatic and dispersive interactions act as a basic unit, and the clusters are chiral. Unlike other non-ionic molecular clusters formed on the surfaces, these rare-earth clusters show mechanical stability. Moreover, their high mobility on the surface suggests that they are in a 2D liquid-like state.
An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
Since the discovery of X-rays by Roentgen in 1895, its use has been ubiquitous, from medical and environmental applications to materials sciences 1 – 5 . X-ray characterization requires a large number of atoms and reducing the material quantity is a long-standing goal. Here we show that X-rays can be used to characterize the elemental and chemical state of just one atom. Using a specialized tip as a detector, X-ray-excited currents generated from an iron and a terbium atom coordinated to organic ligands are detected. The fingerprints of a single atom, the L 2,3 and M 4,5 absorption edge signals for iron and terbium, respectively, are clearly observed in the X-ray absorption spectra. The chemical states of these atoms are characterized by means of near-edge X-ray absorption signals, in which X-ray-excited resonance tunnelling (X-ERT) is dominant for the iron atom. The X-ray signal can be sensed only when the tip is located directly above the atom in extreme proximity, which confirms atomically localized detection in the tunnelling regime. Our work connects synchrotron X-rays with a quantum tunnelling process and opens future X-rays experiments for simultaneous characterizations of elemental and chemical properties of materials at the ultimate single-atom limit.
In the absence of industry data, organisms, and researchers leverage free and available data, specifically building and demolition permits. Geospatial processing is essential to integrate information from various files into a single GIS layer containing all relevant attributes for analysis. This article proposes a Geographic Information System (GIS) processing model aimed at monitoring construction and demolition dynamics in the European metropolis of Lille to quantify the urban production of mineral waste from buildings. Author methodology is based on that that the deposit potential can be analyzed using the observation of the spatiotemporal dynamics of building and demolition permits. The results demonstrate that combining construction and demolition (C&D) permits with other GIS layers allows us to produce data to quantify demolition surfaces per year in a given French area. The applicability of this methodology extends to all French regions, providing insights into the impact of crises on deconstruction activities and C&D waste generation. The study focuses on C&D French public data bases (French government and European Metropolis of Lille) attributed to the region (area) of the European Metropolis of Lille (MEL) between 2013 and 2022. Some data for 2022 were incomplete due to ongoing treatment, emphasizing the importance of understanding the dynamics of demolition rates or surfaces to identify data gaps or errors. Historical trajectories of C&D permits were quantified and analyzed, revealing over 21,000 permits granted from 2013 to 2022, categorized by site type (new construction, rehabilitations, prior declarations, and demolitions). Construction sites during this period covered approximately 3,345,948 m2, constituting 20% of the MEL's building stock, while demolition sites amounted to 1,977,911 m2, equivalent to 5% of the total area of buildings in the metropolis. Employing GIS allowed for a spatial analysis, visualizing data by municipality, urban fabric, and year. The analysis highlighted territories with high and low potential for demolition and construction, as well as the most impacted urban fabrics and dynamic periods. The article discusses potential crisis impacts (e.g., COVID-19 or economic downturns) and the implications of incomplete data. Finally, the study demonstrates how these findings can be utilized to quantify C&D waste, leveraging GIS and the production rate calculation method (GRC).
We investigate the limit of X-ray detection at room temperature on rare-earth molecular films using lanthanum and a pyridine-based dicarboxamide organic linker as a model system. Synchrotron X-ray scanning tunneling microscopy is used to probe the molecules with different coverages on a HOPG substrate. X-ray-induced photocurrent intensities are measured as a function of molecular coverage on the sample, allowing a correlation of the amount of La ions with the photocurrent signal strength. X-ray absorption spectroscopy shows cogent M4,5 absorption edges of the lanthanum ion originated by the transitions from the 3d3/2 and 3d5/2 to 4f orbitals. X-ray absorption spectra measured in the tunneling regime further reveal an X-ray excited tunneling current produced at the M4,5 absorption edge of the La ion down to the ultimate atomic limit at room temperature.
Variable temperature electron paramagnetic resonance (VT-EPR) was used to investigate the role of the environment and oxidation states of several coordinated Eu compounds. We find that while Eu(III) chelating complexes are diamagnetic, simple chemical reduction results in the formation of paramagnetic species. In agreement with the distorted D3h symmetry of Eu molecular complexes investigated in this study, the EPR spectrum of reduced complexes showed axially symmetric signals (g⊥ = 2.001 and g∥ = 1.994) that were successfully simulated with two Eu isotopes with nuclear spin 5/2 (151Eu and 153Eu with 48% and 52% natural abundance, respectively) and nuclear g-factors 151Eu/153Eu = 2.27. Illumination of water-soluble complex Eu(dipic)3 at 4 K led to the ligand-to-metal charge transfer (LMCT) that resulted in the formation of Eu(II) in a rhombic environment (gx = 2.006, gy = 1.995, gz = 1.988). The existence of LMCT affects the luminescence of Eu(dipic)3, and pre-reduction of the complex to Eu(II)(dipic)3 reversibly reduces red luminescence with the appearance of a weak CT blue luminescence. Furthermore, encapsulation of a large portion of the dipic ligand with Cucurbit[7]uril, a pumpkin-shaped macrocycle, inhibited ligand-to-metal charge transfer, preventing the formation of Eu(II) upon illumination.
Rare-earth ion-based materials bear many remarkable optical properties that render them highly appealing for lighting and quantum-related applications. However, their small oscillator strength and weak emission often pose limitations. Here, we synthesize and couple Eu(III)-based molecular complexes to nanobeam photonic crystals supporting air modes. A reasonable spatial overlap between the molecular complexes and cavity modes leads to an average spontaneous emission coupling efficiency of 0.19. Our pump power-dependent photoluminescence measurements evidence amplified spontaneous emission from the molecular complexes with an amplification threshold as low as 4.4 W/cm2, likely benefiting from the efficient coupling. These findings suggest that integrating rare-earth ion-based molecular complexes with photonic structures could be a viable approach for regulating their emission characteristics for particular applications.
Cucurbit[7]uril (CB[7]) encapsulates adamantyl and trimethylsilyl substituents of positively charged guests in dimethyl sulfoxide (DMSO). Unlike in water or deuterium oxide, addition of a selection of alkali and alkali-earth cations with van der Waals radii between 1.0 and 1.4 Å (Na+, K+, Ca2+, Sr2+, Ba2+ and Eu3+) to the CB[7]/guest complexes triggers their cation-mediated trimerization, a process that is very slow on the nuclear magnetic resonance (NMR) time scale. Smaller (Li+, Mg2+) or larger cations (Rb+, Cs+ or NH4+) are inert. The trimers display extensive CH-O interactions between the equatorial and pseudo-equatorial hydrogens of CB[7] and the carbonyl rim of the neighboring CB[7] unit in the trimer, and a deeply nested cation between the three interacting carbonylated CB[7] rims; a counteranion is likely perched in the shallow cavity formed by the three outer walls of CB[7] in the trimer. Remarkably, a guest must occupy the cavity of CB[7] for trimerization to take place. Using a combination of semi-empirical and density functional theory techniques in conjunction with continuum solvation models, we showed that trimerization is favored in DMSO, and not in water, because the penalty for the partial desolvation of three of the six CB[7] portals upon aggregation into a trimer is less unfavorable in DMSO compared to water.
Complexes containing rare-earth ions attract great attention for their technological applications ranging from spintronic devices to quantum information science. While charged rare-earth coordination complexes are ubiquitous in solution, they are challenging to form on materials surfaces that would allow investigations for potential solid-state applications. Here we report formation and atomically precise manipulation of rare-earth complexes on a gold surface. Although they are composed of multiple units held together by electrostatic interactions, the entire complex rotates as a single unit when electrical energy is supplied from a scanning tunneling microscope tip. Despite the hexagonal symmetry of the gold surface, a counterion at the side of the complex guides precise three-fold rotations and 100% control of their rotational directions is achieved using a negative electric field from the scanning probe tip. This work demonstrates that counterions can be used to control dynamics of rare-earth complexes on materials surfaces for quantum and nanomechanical applications.
Despite the remarkable optical properties of rare-earth ion materials, their applications as light sources and in quantum technologies are often hindered by their long lifetimes and weak emission. Leveraging the natural compatibility of rare-earth ion molecular complexes with photonic structures, here we modify their photoluminescence properties by coupling them to a flexible open Fabry-Perot cavity. The full in situ tunability of the Fabry-Perot cavity allows fine control over its cavity modes and the achievement of resonant coupling between the rare-earth ion emission and the cavity modes. This configuration allows us to achieve a maximum photoluminescence enhancement factor of 30 and accelerate the decay rate up to two orders of magnitude. Our pump-power-dependent spectroscopic studies of the emitter-cavity system suggest that the cavity-modified emission is primarily caused by amplified spontaneous emission. These results suggest that integrating rare-earth ion molecular complexes with photonic structures could be a viable approach for the effective tuning of their optical properties. This natural compatibility, together with their versatile molecular structures and the resultant electronic states, renders rare-earth ion molecular complexes a potential alternative material platform for lighting and quantum applications.
Relative binding affinities of a series of nine rigid hydrocarbons towards the cavity formed by a portion of the inner wall of cucurbit[8]uril (CB[8]) and a positive auxiliary guest were determined by competitive 19F NMR titrations in deuterium oxide. The corresponding free binding energies were corrected by the hydrocarbon computed solvation energies to obtain their free energies of transfer from the gas phase to the CB[8]/auxiliary guest cavity. These energies correlate linearly with the hydrocarbon static polarizabilities, thereby suggesting that the selectivity is driven, perhaps exclusively, by dispersive interactions between the hydrocarbons and the tailor-made cavity, regardless of the degree of unsaturation of the guests. The free energies of transfer also correlate linearly with the energy released upon introduction of the hydrocarbon into a pre-formed cavity extruded from a solvent (benzene) selected to mimic the polarity and polarizability of the CB[8]/auxiliary probe cavity - and this, with a unity slope. Among other features, this empirical model also accurately predicts the relative binding affinities of various rigid hydrocarbons to CB[6] and CB[7], as well as noble gases to CB[5], when the macrocycles are mimicked with pre-formed cavities in perfluorohexane or perfluorohexane/benzene mixtures, both being notoriously non-polar and non-polarizable environments.
Solvent-free mechanochemical synthesis (ball-milling) was used to prepare inclusion complexes with cucurbit[7]uril and four model guest molecules (adamantane, adamantyl-1-amine hydrochloride, toluidine hydrochloride, and p-phenylenediamine dihydrochloride). Successful formation of individual inclusions was independently confirmed by one- and two-dimensional solid-state NMR techniques and differential scanning calorimetry. Mechanochemical synthesis represents an alternative path towards new types of cucurbit[n]uril/guest inclusion complexes that are not accessible due to limited solubility of the individual components.
A cucurbit[8]uril (CB[8])-secured platinum terpyridyl chloride dimer was used as a photosensitizer and hydrogen-evolving catalyst for the photoreduction of water. Volumes of produced hydrogen were up to 25 and 6 times larger than those obtained with the corresponding free and cucurbit[7]uril-bound platinum monomer, respectively, at equal Pt concentration. The thermodynamics of the proton-coupled electron transfer from the Pt(ii)-Pt(ii) dimer to the corresponding Pt(ii)-Pt(iii)-H hydride key intermediate, as quantified by density functional theory, suggest that CB[8] secures the Pt(ii)-Pt(ii) dimer in a particularly reactive conformation that promotes hydrogen formation.
Platinum terpyridyl complexes, stacked on top of one another and secured as dimers with cucurbit[8]uril (CB[8]) in aqueous medium, were functionalized quantitatively and in situ with a pair of pentapeptides Phe-(Gly)3-Cys by grafting their cysteine residues to the Pt centers. The resulting CB[8]·(Pt·peptide)2 assemblies were used to target secondary hosts CB[7] and CB[8] via their pair of phenylalanine residues, again in situ. A series of well-defined architectures, including a supramolecular "pendant necklace" with hybrid head-to-head and head-to-tail arrangements inside CB[8], were obtained during the self-sorting process after combining only 3 or 4 simple building units.