I11-High Resolution Powder Diffraction
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Abstract: Fumaric acid and alkyl fumarates are a family of structurally related compounds with a wide spectrum of potential or effective therapeutic applications. The series consisting of fumaric acid (FA), monomethyl fumarate (MMF), dimethyl fumarate (DMF), monoethyl fumarate (MEF), and diethyl fumarate (DEF) was studied in this work to address the following main questions: how does the number of OH···O hydrogen bonds that may be established due to systematic differences in molecular structure impacts on the molecular packing and lattice energetics? Is there evidence of a cooperative hydrogen bond strengthening when infinite 1D chains sustained by OH···O hydrogen bonds are formed? How well can the structural and energetic features of this series of related molecules be predicted by state-of-the art force field and periodic DFT procedures that are used in the rationalization or prediction of crystal structures and physical properties of molecular organic solids? By combining results from a variety of experimental (X-ray diffraction, Raman spectroscopy, DSC, Calvet drop-sublimation calorimetry) and theoretical (quantum mechanical, molecular dynamics simulations) methods, it was found that (i) in all cases, the molecular packing leads to layered solids, where each layer consists of 1D chain motifs linked to each other through C–H···O interactions. (ii) The 1D arrangements are determined by two main motifs: the R22(8) carboxyl dimer, typically found in mono- and di-n-alkyl carboxylic acids, and the staggered CH3···H3C synthon, which is present in mono-n-alkyl carboxylic acids and n-alkanes. This leads to the formation of carboxyl–carboxyl and alkyl–alkyl domains that are structurally isolated from each other. (iii) The lattice energy, as measured by the enthalpy of sublimation (ΔsubHmo), varies according to FA > MMF ∼ MEF > DMF ∼ DEF and is linearly correlated with the number of OH···O hydrogen bonds present in the structures. (iv) The larger enthalpy of sublimation of FA compared to MMF and MEF is linked to the number of OH···O hydrogen bonds but does not seem to be related to their individual strength. Examination of O···O distance and C═O stretching frequency as well as theoretically computed dissociation energies of dimeric FA, MMF, and MEF species suggests that the OH···O interaction is weaker in FA than in MMF and MEF. As such, the present study showed no evidence of a cooperative OH···O bond strengthening in FA, relative to MMF and MEF, due to the presence of infinite 1D chains sustained by carboxylic acid dimers. (v) No evident connection between ΔsubHmo and compactness indicators such as density or Kitaigorodski packing index was also found. Finally, (vi) MD simulations and periodic DFT calculations were both able to reproduce the above-mentioned ΔsubHmo trend and capture the main structural features of the family of crystalline materials studied in this work. In terms of accuracy, better overall performance was observed for the force field method developed for this particular type of compounds.
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Nov 2024
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B18-Core EXAFS
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Robert E.
Dinnebier
,
Karsten
Seidel
,
Maxwell W.
Terban
,
Alexander V.
Yakimov
,
Philipp
Müller
,
Thorsten
Wieczorek
,
Derek A.
Elam
,
Joerg
Fees
,
Bernd
Kratzer
,
Michael
Speitling
,
Simon D. M.
Jacques
,
Stephen W. T.
Price
,
Waldemar
Hoffmann
,
Cedric
Blum
,
Lars
Meyer
,
Michael
Liebel
,
Imke B.
Müller
,
Christophe
Copéret
,
Martin
Viertelhaus
Diamond Proposal Number(s):
[33659]
Abstract: Ethylenebis(dithiocarbamates) (EBDTCs) have been extensively used as fungicides in agriculture for nearly 80 years. Modern fungicides based on EBDTCs contain metal ions, such as zinc in Zineb and Metiram, manganese in Maneb, or combinations of both, such as in Mancozeb. Despite being commercially available since the 1940s, the molecular structure of the metal complexes of EBDTCs was not described in detail until the crystal structure of Zineb was published in 2020. Zineb (C4H6N2S4Zn) is a single-phase crystalline material. In this study, we present a comprehensive multimethod structural characterization of Metiram (C12H27N9S12Zn3), which is the active ingredient of Polyram WG, a highly effective and plant-compatible organic contact fungicide. Our findings reveal that Metiram comprises two distinct phases. The primary phase, phase I, of Metiram is ethylenebis(dithiocarbamate) zinc(II) ammine, which constitutes 81 wt % of the material, or three-quarters of EBDTC. It is a zinc-coordinating crystalline phase. The crystal structure of this phase was determined by powder X-ray diffraction, revealing 1D S-shaped chains of EBDTC connected by strongly distorted Zn[NH3][S4] tetragonal pyramids. These pyramids share their sulfur atoms, and ammonia molecules occupy the apex of the pyramids, pointing alternately up and down. The secondary phase, phase II, constitutes 19 wt % of the material or one-quarter of EBDTC, and is amorphous. Using a combination of different techniques, including microscopy, diffraction, and spectroscopy, we have concluded that phase II consists of Zn-free EBDTC. We infer that the primary structure of this secondary constituent aligns with previous assumptions, notably the absence of a significant amount of Zn and the presence of disulfide bonds.
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Sep 2024
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I15-1-X-ray Pair Distribution Function (XPDF)
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Diamond Proposal Number(s):
[31642]
Abstract: Alkali metal imidazolates are important compounds, serving as intermediates in organic synthesis and additives in alkali ion electrolytes. However, their solid-state structures and thermal behaviors remain largely unexplored. In this study, we present the synthesis, structural analysis, and thermal characterization of lithium and sodium benzimidazolate (bim–). The crystal structures of these microcrystalline materials, determined by 3D electron diffraction, reveal closely related layered coordination networks. In these structures, 4-fold N-coordinated alkali ions are bridged in two dimensions by bim– linkers, with the networks’ surfaces decorated by the phenyl rings of the bim– linkers, stacking atop one another in the solid state. Differential scanning calorimetry combined with variable temperature X-ray powder diffraction indicates that both materials melt above 450 °C. Additionally, Na(bim) undergoes a displacive phase transition from an ordered α-phase to a highly disordered β-phase before melting. Structural variations, primarily attributable to the differing ionic radii of Li+ and Na+, result in distinct coordination environments of the alkali metal ions and varying orientations of the bim– linkers. These differences lead to markedly distinct thermal behaviors: Li(bim) exhibits positive thermal expansion along all crystal axes, whereas Na(bim) switches from area negative thermal expansion (NTE) to linear NTE during the α → β phase transition.
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Aug 2024
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I19-Small Molecule Single Crystal Diffraction
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Diamond Proposal Number(s):
[30280]
Open Access
Abstract: A rigid bis(urea) molecular cleft (BU1) based on the cis diastereomer of a rigid isophorone-derived spacer forms solid-state inclusion complexes with a range of small molecular guests. Larger guests can be accommodated by a shift in orientation to open up crystalline channels while retaining the same overall hydrogen-bonded topology. The introduction of molecular flexibility to give BU2, which possesses a methylene spacer, destroys the host–guest complexation behavior and restores the more conventional urea α-tape packing, giving viscous solutions due to columnar aggregation. Crystallization of both BU1 and BU2 from a mixture of cis and trans diastereomeric forms is highly diastereoselective with the cis isomers being significantly less soluble. Isolation of a trans isomer of BU2 from crystallization of cis-depleted mother liquor reveals an unusual intramolecular hydrogen bond arrangement, explaining its greater solubility.
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Aug 2024
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I24-Microfocus Macromolecular Crystallography
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Diamond Proposal Number(s):
[30106]
Open Access
Abstract: A novel monoacylglycerol, 7.10 MAG, has been produced for use in the in meso (lipid cubic phase) crystallization of membrane proteins and complexes. 7.10 MAG differs from monoolein, the most extensively used lipid for in meso crystallization, in that it is shorter in chain length by one methylene and its cis olefinic bond is two carbons closer to the glycerol headgroup. These changes in structure alter the phase behavior of the hydrated lipid and the microstructure of the corresponding mesophases formed. Temperature–composition phase diagrams for 7.10 MAG have been constructed using small- and wide-angle X-ray scattering over a range of temperatures and hydration levels that span those used for crystallization. The phase diagrams include lamellar crystalline, fluid isotropic, lamellar liquid-crystalline, cubic-Ia3d, and cubic-Pn3m phases, as observed with monoolein. Conspicuous by its absence is the inverted hexagonal phase which is rationalized on the basis of 7.10 MAG’s chemical constitution. The cubic phase prepared with the new lipid facilitates the growth of crystals that were used to generate high-resolution structures of intramembrane β-barrel and α-helical proteins. Compatibility of fully hydrated 7.10 MAG with cholesterol and phosphatidylcholine means that these two lipids can be used as additives to optimize crystallogenesis in screening trials with 7.10 MAG as the host lipid.
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Mar 2024
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I19-Small Molecule Single Crystal Diffraction
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Diamond Proposal Number(s):
[16117]
Open Access
Abstract: Zˈ is a parameter used to denote the number of symmetry-independent molecules in the asymmetric unit of a crystal structure. High Zˈ (>1) crystal structures are relatively uncommon and are thought to arise through competition between intermolecular interactions of similar strength. As such high Zˈ crystal structures are challenging to predict and new examples are valuable in improving understanding in the field. Herein, we report the X-ray crystal structures of a series of shikimate esters, the asymmetric units of which exhibit high Zˈ values. Of special interest is the crystal structure of methyl shikimate, the asymmetric unit of which comprises 12 independent molecules; Zˈ = 12. This uncommonly large Zˈ value arises through a combination of factors, including the intrinsic homochirality of the molecule, the conformational inflexibility of the cyclohexene ring, the presence of multiple hydrogen bonding motifs, and both the cis- and trans-conformers of the ester moiety. Comparison of the X-ray crystal structures of shikimic acid, methyl shikimate, ethyl shikimate, and iso-propyl shikimate suggests that instances of high Zˈ in this series correlate with specific hydrogen bonding motifs influenced by the steric bulk of the ester. The results of this study provide important insights into factors that influence the formation of organic crystal structures where the value of Zˈ is greater than 1.
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Jan 2024
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I11-High Resolution Powder Diffraction
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Diamond Proposal Number(s):
[25007]
Open Access
Abstract: We present an extensive exploration of the solid-form landscape of chlorpropamide (CPA) using a combined experimental–computational approach at the frontiers of both fields. We have obtained new conformational polymorphs of CPA, placing them into context with known forms using flexible-molecule crystal structure prediction. We highlight the formation of a new polymorph (ζ-CPA) via spray-drying experiments despite its notable metastability (14 kJ/mol) relative to the thermodynamic α-form, and we identify and resolve the ball-milled η-form isolated in 2019. Additionally, we employ impurity- and gel-assisted crystallization to control polymorphism and the formation of novel multicomponent forms. We, thus, demonstrate the power of this collaborative screening approach to observe, rationalize, and control the formation of new metastable forms.
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Aug 2023
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I11-High Resolution Powder Diffraction
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Open Access
Abstract: Erlotinib hydrochloride (EtbHCl), whose polymorphism is still ill-characterized, is an essential component of the current armamentarium for the treatment of pancreatic and lung cancers. It recently became a textbook example of the importance of crystal polymorphism for drug development and patent litigation. In this work, a quantitative evaluation of the relative thermodynamic stability of the two most important EtbHCl polymorphs (forms A and B) was performed. Based on calorimetric and solubility studies, the standard molar Gibbs energy, enthalpy, and entropy of the B(cr) → A(cr) transition at 298 K were obtained as ΔtrsGm° (B → A) = 2.4 ± 1.0 kJ mol−1, ΔtrsHm° (B → A) = 6.1 ± 1.1 kJ mol−1, and TΔtrsSm° (B → A) = 3.7 ± 1.5 kJ mol–1, respectively. These results unequivocally indicate that form B is more stable than form A at, or close to, ambient temperature and that the larger stability of form B is enthalpically determined (hence of lattice energy origin). The solubility measurements (gastric fluid at pH 1.2, 298 ± 1 K) evidenced a 2.6 times larger solubility of form A relative to form B. This suggests that a significant bioavailability enhancement may be potentially obtained if form A rather than form B is used in EtbHCl formulations. Differential scanning calorimetry and hot-stage microscopy experiments indicated that the two forms are monotropically related and exhibit considerably different thermal behaviors: on heating form B from 298 K, only fusion was observed; in contrast, the fusion of form A is followed by the formation of plate-like crystals that subsequently transform into a needle-like phase that subsequently melts. None of these two high-temperature phases should correspond to form B, given that melting occurs at a significantly lower temperature than the fusion of form B. Finally, insights into the structural differences between the two forms were provided by combining information from the previously reported crystal structure of form B and from FT-IR and Raman microspectroscopy experiments carried out on both forms. The overall results suggest that (i) the ethynylphenyl and quinazoline ring systems of the EtbHCl molecule are likely to be more coplanar and adopt a different conformation in form A (anti) than in form B (syn); (ii) a nonclassical C≡C–H···O hydrogen bond interaction, which is evident in the crystal structure of form B, is not present or is substantially weaker in form A.
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Aug 2023
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I11-High Resolution Powder Diffraction
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Diamond Proposal Number(s):
[20894]
Open Access
Abstract: Phase transitions in crystalline molecular solids have important implications in the fundamental understanding of materials properties and in the development of materials applications. Herein, we report the solid-state phase transition behavior of 1-iodoadamantane (1-IA) investigated using a multi-technique strategy [synchrotron powder X-ray diffraction (XRD), single-crystal XRD, solid-state NMR, and differential scanning calorimetry (DSC)], which reveals complex phase transition behavior on cooling from ambient temperature to ca. 123 K and on subsequent heating to the melting temperature (348 K). Starting from the known phase of 1-IA at ambient temperature (phase A), three low-temperature phases are identified (phases B, C, and D); the crystal structures of phases B and C are reported, together with a re-determination of the structure of phase A. Remarkably, single-crystal XRD shows that some individual crystals of phase A transform to phase B, while other crystals of phase A transform instead to phase C. Results (from powder XRD and DSC) on cooling a powder sample of phase A are fully consistent with this behavior while also revealing an additional transformation pathway from phase A to phase D. Thus, on cooling, a powder sample of phase A transforms partially to phase C (at 229 K), partially to phase D (at 226 K) and partially to phase B (at 211 K). During the cooling process, each of the phases B, C, and D is formed directly from phase A, and no transformations are observed between phases B, C, and D. On heating the resulting triphasic powder sample of phases B, C, and D from 123 K, phase B transforms to phase D (at 211 K), followed by the transformation of phase D to phase C (at 255 K), and finally, phase C transforms to phase A (at 284 K). From these observations, it is apparent that different crystals of phase A, which are ostensibly identical at the level of information revealed by XRD, must actually differ in other aspects that significantly influence their low-temperature phase transition pathways. This unusual behavior will stimulate future studies to gain deeper insights into the specific properties that control the phase transition pathways in individual crystals of this material.
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Apr 2023
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I19-Small Molecule Single Crystal Diffraction
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Diamond Proposal Number(s):
[22240]
Open Access
Abstract: We report an approach to obtain drug-mimetic supramolecular gelators, which are capable of stabilizing metastable polymorphs of the pharmaceutical salt mexiletine hydrochloride, a highly polymorphic antiarrhythmic drug. Solution-phase screening led to the discovery of two new solvated solid forms of mexiletine, a type C 1,2,4-trichlorobenzene tetarto-solvate and a type D nitrobenzene solvate. Various metastable forms were crystallized within the gels under conditions which would not have been possible in solution. Despite typically crystallizing concomitantly with form 1, a pure sample of form 3 was crystallized within a gel of ethyl methyl ketone. Various type A channel solvates were crystallized from gels of toluene and ethyl acetate, in which the contents of the channels varied from those of solution-phase forms. Most strikingly, the high-temperature-stable form 2 was crystallized from a gel in 1,2-dibromoethane: the only known route to access this form at room temperature. These results exemplify the powerful stabilizing effect of drug-mimetic supramolecular gels, which can be exploited in pharmaceutical polymorph screens to access highly metastable or difficult-to-nucleate solid forms.
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Oct 2022
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