Search Results (39)

An in-depth investigation of the adsorption and diffusion mechanism of hydrogen in low-rank coals is of great significance for optimizing the technical path of geological hydrogen storage and improving the efficiency of hydrogen storage. Two kinds of coal samples with a low metamorphic degree from Foran Coal Mine and Sihe Coal Mine were used as adsorbents, and the metamorphic degree and molecular structure of the coal samples were determined experimentally, and the adsorption and diffusion mechanism of H₂ molecules in the structure of low metamorphic coal was analyzed from the atomic level based on numerical simulation. It was found that the aliphatic carbon in the low-rank coal mainly links the aromatic ring in the form of a branched chain and exists as an aliphatic ring, side chain, or bridging carbon, and the lower the deterioration degree of the coal, the longer the length of the alkane side chain in the molecular structure. The branched structure present in the aliphatic carbon and the polybenzene ring structure present in the aromatic carbon can provide more effective adsorption sites and enhance the adsorption of H₂ by the low-rank coal structure. High specific surface area and porosity will enhance the adsorption of H₂ from coal samples, while the presence of oxygen-containing functional groups in low-rank coals will strengthen the interaction between the microporous structure and H₂. These findings provide theoretical support for the application of low-rank coals in geological hydrogen storage. Full article

The crystal structures, interactions, and contacts analyses of four N-(ferrocenylalkyl)benzene-carboxamide derivatives are described as the N-(ferrocenylmethyl)benzenecarboxamide 4a, N-(ferrocenylmethyl)-2,6-difluorobenzenecarboxamide 4e, N-(ferrocenylmethyl)pentafluorobenzenecarboxamide 4f and N-(ferrocenylethyl)-4-fluorobenzenecarboxamide 5. Intermolecular amide⋯amide hydrogen-bonding interactions as 1D intermolecular chains are present in all four crystal structures, with N⋯O distances ranging from 2.819 (2) to 2.924 (3) Å. Three of the crystal structures have one molecule per asymmetric unit, except the phenyl 4a, which has Z’=2. In the structure of 4a, Fc(C-H)⋯(phenyl) and _phenylC-H⋯π(C₅H₄) ring interactions dominate the interaction landscape, together with (1:1) face-to-face (phenyl)⋯(phenyl) and (C₅H₅)⋯(C₅H₅) ring stacked pairs (Fc = ferrocenyl moiety). In 4e, interlocking ferrocenyls, short C-H⋯(C-F) and C-H⋯O hydrogen bonds are the only additional notable intermolecular interactions. In the pentafluorophenyl derivative 4f, a remarkable selection of interactions is present with interwoven 1D ferrocenyl⋯(C₆F₅) stacking and C-H⋯F interactions; molecules aggregate forming impressive 1D columns comprising intertwined (Fc⋯C₆F₅⋯)_n ring stacking. In the ethyl bridged system 5, C-H⋯F and C-H⋯π (arene) contacts with (4-fluorobenzene) ring⋯ring pairs combine and stack about inversion centres. The reported para-F substituted structure REYWOU (4d) is used for comparisons with the 4a, 4e, 4f, and 5 crystal structures. In view of the rich interaction chemistry, contacts enrichment analyses of the Hirshfeld surface highlights several interesting features in all five ferrocenylalkylcarboxamide structures. Full article

Two new Co(II) coordination compounds viz. [Co(H₂O)(bz)₂(μ-3-Ampy)₂]_n (1) and [Co(4-Mebz)₂(2-Ampy)₂] (2) (wherebz = benzoate, 4-Mebz = 4-Methylbenzoate and Ampy = Aminopyridine) were synthesized and characterized via elemental (CHN), electronic spectroscopy, FT-IR spectroscopy, and thermogravimetric analysis (TGA). The molecular structures were determined by single-crystal X-ray diffraction analysis, inferring that compound 1 crystallizes as a 3-Ampy bridged Co(II) coordination polymer, whereas compound 2 crystallizes as a mononuclear Co(II) compound. Compound 1 unfolds the presence of N–H⋯O, C–H⋯O, O–H⋯O, C–H⋯N and aromatic π⋯π interactions, while for compound 2, N–H⋯O, C–H⋯O, C–H⋯C and C–H⋯π interactions are observed. Both the compounds showcase scarcely reported chelate ring interactions involving the benzoate moiety (chelate ring⋯π in 1 and N–H⋯chelate ring in 2). We also conducted theoretical evaluations comprising of combined QTAIM/NCI plot analysis, DFT energy calculation and MEP surface analysis to analyze the supramolecular interactions present in the crystal structures. As per QTAIM parameters, the predominance of π-stacking interactions over hydrogen bonds in stabilizing the assembly in compound 1 is affirmed. Likewise, in compound 2, both hydrogen bonding (HBs) and C–H⋯π interactions are deemed pivotal in stabilizing the dimeric assemblies. The in vitro antiproliferative activities of compounds 1 and 2 were performed against Dalton’s lymphoma (DL) cancer cell lines through cytotoxicity and apoptosis assays, showcasing higher cytotoxicity of compound 1 (IC₅₀ = 28 μM) over compound 2 (IC₅₀ = 34 μM). Additionally, a molecular docking study investigated the structure–activity relationship of these compounds and allowed an understanding of the molecular behaviour after treatment. Full article

Synthetic mimics of the active site of [FeFe]-hydrogenase enzymes are important in the context of catalytic hydrogen production for future energetic applications. Providing a detailed quantum chemical description of the catalytic center of such mimics contributes to a better understanding of their behavior in hydrogen production processes. In this work, the analysis of bonds in the butterfly [2Fe2S] core in a series of complexes based on recently synthesized [FeFe]-hydrogenase mimics has been carried out using a wide range of quantum chemical topological methods. This series includes hexacarbonyl diiron dithiolate-bridged complexes with the bridging ligand bearing a five-membered carbon ring functionalized with diverse groups. The quantum theory of atoms in molecules (QTAIM) and the electron localization function (ELF) provided detailed characteristics of Fe–Fe and Fe–S bonds in the [2Fe2S] core of the complexes. A relatively small amount of strongly delocalized electron charge is attributed to the Fe–Fe bond. It was established how the topological parameters of the Fe–Fe and Fe–S bonds are affected by the five-membered carbon ring and its functionalization in the bridging dithiolate ligand. Next, one of the first applications of the interacting quantum atoms (IQA) method to [FeFe]-hydrogenase mimics was presented. The pairwise interaction between the metal centers in the [2Fe2S] core turns out to be destabilizing in contrast to the Fe–S interactions responsible for the stabilization of the entire core. Full article

Acidic properties of ion-exchanged LTL zeolites have been studied using FTIR spectroscopy, complemented by X-ray powder diffraction, SEM-EDX, XRF and N₂ physisorption. Infrared spectra of the ion-exchanged zeolites show the presence of two intense bands of the bridging OH-groups: a narrow band at ~3640 cm⁻¹ that is attributed to Si(OH)Al groups freely vibrating in 12 MR and a broad, intense band at ~3250 cm⁻¹ that is assigned to bridging OH groups forming hydrogen bond with neighbouring oxygen atoms, e.g., in six-membered rings. The former can be selectively removed by caesium or rubidium cations with up to 3 Cs⁺ or Rb⁺ per unit cell readily ion-exchanged into the LTL zeolite, replacing an equivalent number of acidic OH-groups or K⁺ cations within the structure. The cation migration of the larger cation, evaluated by the Rietveld refinement method, occurs mostly via the main 12 MR channels. By contrast, less than 1 Li⁺ or Na⁺ cation per unit cell can be introduced under similar conditions. Accordingly, the concentration of Si(OH)Al groups in back-exchanged NH₄-K-LTL with smaller cations (Li⁺, Na⁺) does not differ considerably from the concentration of Brønsted acid sites in the original NH₄-K-LTL. Lower concentrations of acid sites have been detected in the samples back-exchanged with Cs⁺, Rb⁺ and K⁺. In addition, the acidic properties of NH₄-LTL samples have been compared with a structurally related NH₄-MAZ zeolite. Full article

The experimental IR spectra of (S)-4′-(1-methylheptyloxycarbonyl) biphenyl-4-yl 4-[2-(2,2,3,3,4,4,4-heptafluorobutoxy) ethyl-1-oxy]-2-fluorobenzoate in the crystal phase are analyzed with the help of dispersion-corrected density functional theory (DFT+D3) calculations for isolated molecular monomer and dimer models, and a periodic model computed at the extended density functional tight-binding (xTB) level of theory. It is found that the frequency scaling coefficients obtained with the results of the molecular calculations are good matches for the crystal phase, being close to 1. The molecular and periodic models both confirm that varied intra- and intermolecular interactions are crucial in order to reproduce the broadened shape of the experimental band related to C=O stretching; the key factors are the conjugation of the ester groups with the aromatic rings and the varied intermolecular chemical environments, wherein the C=O group that bridges the biphenyl and F-substituted phenyl groups seems particularly sensitive. The C=O stretching vibrations are investigated as a function of temperature, covering the range of the crystal, smectic C_A*, smectic C* and isotropic liquid phases. The structure changes are followed based on the X-ray diffraction patterns collected in the same temperatures as the IR spectra. The experimental and computational results taken together indicate that the amount of weak C=O…H-C hydrogen bonds between the molecules in the smectic layers decreases with increasing temperature. Full article

Curcuminoids are naturally occurring yellow-colored compounds that, when hydrogenated to remove their conjugated double bond, become colorless and are referred to as tetrahydrocurcuminoids. Curcuminoids consist of pure curcumin (PC) in major amounts and demethoxycurcumin (DC) and bisdemethoxycurcumin (BDC) in minor amounts. Tetrahydrocurcuminoids similarly consist mainly of tetrahydrocurcumin (THC), along with minor amounts of tetrahydrodemethoxycurcumin (THDC) and tetrahydrobisdemethoxycurcumin (THBDC). Previous studies have shown the inhibitory effects of PC, DC, and BDC on melanin production, but there are contradictory findings about THC. In addition, there are currently no reports on the effects of THDC and THBDC on melanogenesis. Our previous report described that, in contrast to PC, which suppressed melanin production, THC stimulated melanin production in B16F10 and MNT-1 cells; this effect was ascribed to the loss of the conjugated heptadiene moiety of PC. However, whether this finding can be generalized to the two curcumin derivatives (DC and BDC), such that THDC and THBDC might also stimulate melanogenesis, has not been addressed. Herein, a comparative study of six curcumin derivatives (PC, DC, BDC, THC, THDC, and THBDC) was undertaken to identify their effects on melanogenesis with the goal of elucidating the structure–activity relationships (SARs) focused on assessing the two regions of the parent curcumins’ structure: (i) the hydrogenation of the two double bonds bridging the phenyl rings to the β-diketone moiety, and (ii) the effect of the ortho-methoxy substituent (-OCH₃) on the two phenyl rings. To determine the direct effects of the six compounds, antioxidant activity and tyrosinase activity were assessed in cell-free systems before cellular experiments utilizing the B16F10 mouse melanoma cells, MNT-1 human melanoma cells, and primary cells. Evaluations were made on cytotoxicity, melanin concentration, and cellular tyrosinase activity. The results showed that BDC inhibited melanogenesis in B16F10 and MNT-1 cells. However, it was ineffective in primary human melanocytes, while THBDC continued to exhibit anti-melanogenic capacity in normal human melanocytes. Moreover, these findings provide a novel perspective into the role of the methoxy groups of PC on the biological effects of melanogenesis and also confirm that the removal of the conjugated double bonds abolishes the anti-melanogenic capacity of PC and DC only, but not BDC, as THBDC maintained anti-melanogenic activity that was greater than BDC. However, the outcome is contingent upon the specific kind of cell involved. To the best of our knowledge, this work presents novel findings indicating that the anti-melanogenic capacity of the colored BDC is not only intact but enhanced after its hydrogenation as observed in THBDC. The findings show potential for using colorless THBDC as a pharmacological candidate to diminish the increased pigmentation characteristic of skin hyperpigmentation disorders. Future pharmacological therapeutics that incorporate pure THBDC or THBDC-enriched extracts, which retain both a colorless appearance and potent anti-melanogenic activity, can be applied to compounds for anti-melanoma therapeutics where the demand for nontoxic novel molecules is desired for established efficacies. Full article

We have described a new route for the preparation of partially methylated polygalacturonic acid containing hydrolyzed (acidic) and unhydrolyzed (methyl esterified) carboxylate groups in a ratio of 1:1 (PGA, compound 1), and one of its basic Fe^III—salts (compound 2) with a ~1:2 Fe^III:GA stoichiometry (GA means galacturonic acid and methylated galacturonic acid units). The partially hydrolyzed pectin was transformed into compound 1 with the use of double ion exchange with a strongly acidic macroreticular sulfonated styrene–divinylbenzene copolymer as a hydrogen ion source. The reaction of compound 1 with FeCl₃ resulted in compound 2. Compound 2 has a polymeric nature and contains binuclear Fe^III(µ-O)(µ-OH)Fe^III core units with two kinds of distorted octahedral iron geometries. The salt-forming acidic and methylated GA units of compound 1 are coordinated to Fe^III centers in asymmetric bidentate-chelating and -bridging (via C=O group and glycosidic oxygen) modes, respectively. Two kinds of outer-sphere chloride anions were also detected by XPS in various chemical environments fixed by different sets of hydrogen bonds. We also observed a partial reduction of Fe^III into Fe^II due to the ring-opening of the chain-end GA units of compound 1. This reaction provides a new route to determine the number of chain-ends in compound 2, and with the use of the number of GA units calculated from charge neutrality, the average length of these chains and the average molecular weight were also determined. The average molecular weight of the partially methylated polygalacturonic acid used in the industrial-scale production of commercial anti-anemic iron–polygalacturonate agents was ~50,000 g/mol. Compound 2 was also characterized by IR, Mössbauer, and X-ray photoelectron spectroscopy, and magnetic susceptibility measurements. These results on the structure and average molecular weight of basic iron(III) polygalacturonate provide a tool to design Fe-PGA complexes with tuned iron-releasing properties. Full article

Cambridge Structural Database (CSD) is the largest repository of crystal data, containing over 1.2 million crystal structures of organic, metal–organic and organometallic compounds. It is a powerful research tool in many areas, including the extensive studying of noncovalent interactions. In this review, we show how a thorough analysis of CSD crystal data resulted in recognition of novel types of stacking interactions. Even though stacking interactions were traditionally related to aromatic systems, a number of crystallographic studies have shown that nonaromatic metal–chelate rings, as well as hydrogen-bridged rings, can also form stacking interactions. Joined efforts of a CSD analysis and quantum chemical calculations showed that these new stacking interactions are stronger than stacking interactions of aromatic species and recognized them as very important attractive forces in numerous supramolecular systems. Full article

The single-crystal X-ray diffraction structure characterizing a new 4-methylbenzamidinium salt of chloroselenite [C₈H₁₁N₂][ClSeO₂] is reported. This is only the second crystal structure report on a ClSeO₂⁻ salt. The structure contains an extended planar hydrogen bond net, including a double interaction with both O atoms of the anion (an $R_2^2\left(8\right)$ ring in Etter notation). The anion has the shortest Se–Cl distances on record for any chloroselenite ion, 2.3202(9) Å. However, the two Se–O distances are distinct at 1.629(2) and 1.645(2) Å, attributed to weak anion–anion bridging involving the oxygen with the longer bond. DFT computations at the RB3PW91-D3/aug-CC-pVTZ level of theory reproduce the short Se–Cl distance in a gas-phase optimized ion pair, but free optimization of ClSeO₂⁻ leads to an elongation of this bond. A good match to a known value for [Me₄N][ClSeO₂] is found, which fits to the Raman spectroscopic evidence for this long-known salt and to data measured on solutions of the anion in CH₃CN. The assignment of the experimental Raman spectrum was corrected by means of the DFT-computed vibrational spectrum, confirming the strong mixing of the symmetry coordinate of the Se–Cl stretch with both ν₂ and ν₄ modes. Full article

Two novel silver(I) coordination polymers, [Ag(4BP)(SCN)]_n (1) and {(4BPH)⁺[Ag(SCN)₂]⁻}_n (2) (4BP = 4-benzoyl pyridine), have been synthesized. The two complexes were prepared using almost the same reagents, which were AgNO₃, 4BP and NH₄SCN. The only difference was the presence of 1:1 (v/v) HNO₃ in the synthesis of 2. In the two complexes, the Ag(I) has distorted tetrahedral coordination geometry. The structure of both complexes and the involvement of the thiocyanate anion as a linker between the Ag(I) centers were confirmed using single-crystal X-ray diffraction. 4BP participated as a monodentate ligand in the coordination sphere of complex 1, while in 2 it is found protonated (4BP-H)⁺ and acts as a counter ion, which balances the charge of the anionic [Ag(SCN)₂]⁻ moiety. The thiocyanate anion shows different coordination modes in the two complexes. In complex 1, the thiocyanate anion exhibits a µ_1,1,3 bridging mode, which binds three Ag(I) ions to build a boat-like ten-membered ring structure leading to a two-dimensional coordination polymer. In 2, there are mixed µ_1,1 and µ_1,3 bridging thiocyanate groups, which form the one-dimensional polymeric chain running in the a-direction. Several interactions affected the stability of the crystal structure of the two complexes. These interactions were examined using Hirshfeld surface analysis. The coordination interactions (Ag-S and Ag-N) have a great impact on the stability of the polymeric structure of the two complexes. Additionally, the hydrogen-bonding interactions are crucial in the assembly of these coordination polymers. The O…H (10.7%) and C…H (34.2%) contacts in 1 as well as the N···H (15.3%) and S···H (14.9%) contacts in 2 are the most significant. Moreover, the argentophilic interaction (Ag…Ag = 3.378 Å) and π- π stacking play an important role in the assembly of complex 2. Full article

Reactions in water between the Cu₂(µ-EGTA) chelate (EGTA = ethylene-bis(oxyethyleneimino)tetraacetate(4-) ion) and Hdap in molar ratios 1:1 and 1:2 yield only blue crystals of the ternary compound [Cu₄(μ-EGTA)₂(μ-H(N₃)dap)₂(H₂O)₂]·7H₂O (1), which has been studied via single-crystal X-ray diffraction and various physical methods (thermal stability, spectral and magnetic properties), as well as DFT theoretical calculations. In the crystal, uncoordinated water is disordered. The tetranuclear complex molecule also has some irrelevant disorder in an EGTA-ethylene moiety. In the complex molecule, both bridging organic molecules act as binucleating ligands. There are two distorted five- and two six-coordinated Cu(II) centers. Each half of EGTA acts as a tripodal tetradentate Cu(II) chelator, with a mer-NO2 + O(ether, distal) conformation. Hdap exhibits the tautomer H(N3)dap, with the dissociable H-atom on its less basic N-heterocyclic atom. These features favor the efficient cooperation between Cu-N7 or Cu-N9 bonds with appropriate O-EGTA atoms, as N6-H···O or N3-H···O interligand interactions, respectively. The bridging role of both organics determines the tetranuclear dimensionality of the complex. In this crystal, such molecules associate in zig-zag chains built by alternating π–π interactions between the five- or six-atom rings of Hdap ligands of adjacent molecules. DFT theoretical calculations (using two different theoretical models and characterized by the quantum theory of “atoms in molecules”) reveal the importance of these π–π interactions between Hdap ligands, as well as those corresponding to the referred hydrogen bonds in the contributed tetranuclear molecule. Full article

In this paper, the synthesis and crystal structure of pyrazine-2,5-diyldimethanol (pyzdmH2, C₆H₈N₂O₂), a new symmetric water-soluble N,O-chelating tetra-dentate organic ligand, is reported and an environmentally friendly method is used to synthesize coordination compounds in water under ambient conditions, from the reaction of pyzdmH2 with the halide salts of Cu(II), Zn(II), Hg(II) and Cd(II): {[Cu(pyzdmH2)_0.5(µ-Br)(Br)(H₂O)]·H₂O}_n 1, {[Zn₂(pyzdmH2)(µ-Cl)(Cl)₃(H₂O)]·H₂O}_n 2, [Hg₂(pyzdmH2)_0.5(µ-Cl)₂(Cl)₂]_n 3, {[Cd₂(pyzdmH2)(µ-Cl)₄]·H₂O}_n 4, and {[Cd₂(pyzdmH2)(µ-Br)₄]·H₂O}_n 5. Single-crystal X-ray diffraction analysis reveals that 1–3 are 1D coordination polymers and 4 and 5 are 3D coordination networks, all constructed by bridging pyrazine-2,5-diyldimethanol and halogen ions. The hydroxyl groups in the organic linker extend the 1D chains to non-covalent 3D networks. In all non-covalent and covalent 3D networks, water molecules are trapped by strong hydrogen bond interactions. Supramolecular analysis reveals strong O-H···O, O-H···N, O-H···X, and weak C-H···O, C-H···X (X = Cl, Br) hydrogen bonds, as well as π-π(pyrazine ring), metal-halogen···π(pyrazine ring), and O-H···ring(5-membered chelate ring) interactions. In addition, X···O weak halogen bonds are present in 1–5 (X = Cl and Br). Full article

Coenzyme A (CoA) is a key cellular metabolite which participates in diverse metabolic pathways, regulation of gene expression and the antioxidant defense mechanism. Human NME1 (hNME1), which is a moonlighting protein, was identified as a major CoA-binding protein. Biochemical studies showed that hNME1 is regulated by CoA through both covalent and non-covalent binding, which leads to a decrease in the hNME1 nucleoside diphosphate kinase (NDPK) activity. In this study, we expanded the knowledge on previous findings by focusing on the non-covalent mode of CoA binding to the hNME1. With X-ray crystallography, we solved the CoA bound structure of hNME1 (hNME1-CoA) and determined the stabilization interactions CoA forms within the nucleotide-binding site of hNME1. A hydrophobic patch stabilizing the CoA adenine ring, while salt bridges and hydrogen bonds stabilizing the phosphate groups of CoA were observed. With molecular dynamics studies, we extended our structural analysis by characterizing the hNME1-CoA structure and elucidating possible orientations of the pantetheine tail, which is absent in the X-ray structure due to its flexibility. Crystallographic studies suggested the involvement of arginine 58 and threonine 94 in mediating specific interactions with CoA. Site-directed mutagenesis and CoA-based affinity purifications showed that arginine 58 mutation to glutamate (R58E) and threonine 94 mutation to aspartate (T94D) prevent hNME1 from binding to CoA. Overall, our results reveal a unique mode by which hNME1 binds CoA, which differs significantly from that of ADP binding: the α- and β-phosphates of CoA are oriented away from the nucleotide-binding site, while 3′-phosphate faces catalytic histidine 118 (H118). The interactions formed by the CoA adenine ring and phosphate groups contribute to the specific mode of CoA binding to hNME1. Full article

Coordination complexes (1–4) of 2-amino-4-methylbenzothiazole and 2-amino-3-methylpyridine with Cu(CH₃COO)₂ and AgNO₃ were prepared and characterized by UV/Vis and FT-IR spectroscopy. The molecular structure for single crystals of silver complexes (2 and 4) were determined by X-ray diffraction. The coordination complex (2) is monoclinic with space group P21/c, wherein two ligands are coordinated to a metal ion, affording distorted trigonal geometry around the central Ag metal ion. The efficient nucleophilic center, i.e., the endocyclic nitrogen of the organic ligand, binds to the silver metal. Ligands are coordinated to adopt cis arrangement, predominantly due to steric reasons. The O(2) and O(3) atoms of the $N{O}_3^{-}$ group further play an important role in such type of ligand arrangement by hydrogen bonding with the NH₂ group of ligands. Complex (4) is orthorhombic, P212121, comprising two molecules of 2-amino-3-methylpyridine as ligand coordinated with the metal ion, affording a polymeric structure. The coordination behavior of the ligand is identical to that in complex 2, wherein ring nitrogen is coordinated to the metal center and bridged to another metal ion through an NH₂ group. The resulting product is polymeric in nature with the Ag metal in the backbone and ligand as the bridge. Compounds (2–4) were found to be luminescent, while 1 did not show such activity. All compounds were screened for their preliminary biological activities such as antibacterial, antioxidant and enzyme inhibition. Compounds exhibited moderate activity in these tests. Full article