Crystal Structure Research Articles

Synthesis, Stability, Meisenheimer Complex Formation, and Charge‐Transfer Properties of Ultra‐Electron‐Deficient Tetracyano‐Naphthalene Diimides

AbstractTetra‐cyano substituted naphthalene diimides (TCNDIs) with calculated LUMO of −5.2 eV, form one of the strongest electron‐acceptors known to date. However, the synthesis and isolation of this class of molecules remain challenging due to its reactivity emanating from its ultra‐electron‐deficiency. Herein we have established an improved synthetic methodology of TCNDIs with cost‐effective reagents and circumventing metallic catalysts. The synthesis is amenable to TCNDIs with the shortest axial alkyl groups, i. e., methyl group and also longer alkyl chains. We also gained insight on how axial alkyl chain lengths influence electron‐deficiency, Meisenheimer complex formation, reactivity, and charge‐transfer of TCNDIs from computation, spectroscopy, and electrochemical studies. The TCNDIs with Me/Et axial groups were found to be more susceptible to moist solvents vis‐à‐vis the TCNDIs with longer alkyl groups. The single crystal structures of the TCNDIs show infinitely π‐stacked structure, and a new C=O ⋅ ⋅ ⋅ C≡N or C≡N ⋅ ⋅ ⋅ π motif is discerned. Finally, toluene‐mediated charge‐transfer properties of TCNDIs in the single crystals as well as in solution have been examined.

Engineering of a Baeyer-Villiger monooxygenase to Improve Substrate Scope, Stereoselectivity and Regioselectivity.

Baeyer-Villiger monooxygenases belong to a family of flavin-binding proteins that catalyze the Baeyer-Villiger (BV) oxidation of ketones to produce lactones or esters, which are important intermediates in pharmaceuticals or sustainable materials. Phenylacetone monooxygenase (PAMO) from Thermobifida fusca with moderate thermostability catalyzes the oxidation of aryl ketone substrates, but is limited by high specificity and narrow substrate scope. In the present study, we applied loop optimization by loop swapping followed by focused saturation mutagenesis in order to evolve PAMO mutants capable of catalyzing the regioselective BV oxidation of cyclohexanone and cyclobutanone derivatives with formation of either normal or abnormal esters or lactones. We further modulated PAMO to increase enantioselectivity. Crystal structure studies indicate that rotation occurs in the NADP-binding domain and that the high B-factor region is predominantly distributed in the catalytic pocket residues. Computational analyses further revealed dynamic character in the catalytic pocket and reshaped hydrogen bond interaction networks, which is more favorable for substrate binding. Our study provides useful insights for studying enzyme-substrate adaptations.

High‐pressure/High‐temperature Synthesis of ErCd2B7O13(BO(OH)3): A Non‐centrosymmetric Erbium Cadmium Borate

AbstractExplorative high‐pressure/high‐temperature syntheses (7 GPa, 800 °C) starting from Er2O3, CdO, and H3BO3 yielded single‐crystals of the hitherto unknown compound ErCd2B7O13(BO(OH)3). This compound crystallizes trigonally in the non‐centrosymmetric space group R3c with the unit cell parameters a=8.8418(2) Å, c=22.4972(8) Å, and six formula units per cell. The crystal structure is composed of corner‐sharing trigonal planar [BO3] and tetrahedral [BO4] groups, forming a complex three‐dimensional framework. In this article, the structural data and characteristics of ErCd2B7O13(BO(OH)3) are presented in detail. Furthermore, the compound's infrared spectrum is discussed.

Effect of Physicochemical Surface Properties of Silicon-Substituted Hydroxyapatite on Angiogenesis.

Synthetic hydroxyapatite (HA) is a widely studied bioceramic for bone tissue engineering (BTE) due to its similarity to the mineral component of bone. As bone mineral contains various ionic substitutions that play a crucial role in bone metabolism, the bioactivity of HA can be improved by adding small amounts of physiologically relevant ions into its crystal structure, with silicate-substituted HA (Si-HA) showing particularly promising results. Nevertheless, it remains unclear how distinct material characteristics influence the bioactivity due to the intertwined nature of surface properties. A coculture methodology was optimized and applied for in vitro quantification of the biological response. Initially, HA and Si-HA samples were produced and characterized. To compare the bioactivity of the samples, a method was developed to measure interactions in an increasingly complex environment, first including fibronectin (FN) adsorption and subsequently cell adhesion in mono and coculture using primary human osteoblasts (hOBs) and human dermal microvascular endothelial cells (HDMECs), with and without FN precoating. An experimental set-up was designed to assess to what extent different surface features of the samples contribute to the induced biological response. An 8-nm gold sputter coating was applied to eradicate the electrochemical differences and polishing and abrading was used to reduce the differences in surface topographies. Overall, 1.25 wt% Si-HA exhibited most nanoscale variations in surface potential. In terms of bioactivity, 1.25 wt% Si-HA samples induced the highest osteoblast attachment and vessel formation. Additionally, in vitro vessel formation was established on Si-HA surfaces using a hOB:HDMEC cell ratio of 70:30 and a methodology was established that enabled the assessment of the relative effect of topographical and electrochemical features induced by silicon substitution in the HA lattice on their bioactivity. It was found that the difference in the amount of protein attached to HA and 1.25 wt% Si-HA after 2 h was affected by topographical differences. Conversely, electrochemical differences induced different vessel-like structure formation in coculture with a FN precoating. Without an FN precoating, both topographical and electrochemical differences dictated the differences in angiogenic response. Overall, 1.25 wt% Si-HA surface features appear to induce the most favorable protein adsorption and cell adhesion in mono and coculture with and without FN precoating.

On Tautomerism and Amphoterism: An In-Depth Structural and Physicochemical Characterization of Ammeline and Some of Its Salts.

Ammeline is a simple, readily available, molecular compound, which has been known for nearly 200 years. Despite that, no proper structural characterization of ammeline has been conducted so far. For this reason, the prevalent tautomeric form of ammeline in the solid remained unknown to this date. In the course of this study, its crystal structure was finally established by single-crystal X-ray diffraction. In this structure, ammeline is exclusively found as its 4,6‑diamino-1,3,5-triazin-2(1H)-one tautomer and adopts layered structure with an exceptionally high hydrogen bond density. Ammeline shows an interesting amphoteric behavior. Therefore, the synthesis and structural characterization of some of its salts were carried out to investigate the influence of the protonation degree on its molecular structure. In particular, the crystal structure of silver ammelinate monohydrate was solved as the first reported structure containing deprotonated ammeline. Moreover, the crystal structures of three different modifications of ammelinium perchlorate were elucidated and the transformation conditions between them were studied. Lastly, the crystal structure of ammelinediium diperchlorate monohydrate, containing unprecedented doubly protonated ammeline, was determined. The products' thermal behavior was studied by differential thermal analysis and thermogravimetric analysis. The perchlorate salts were additionally examined for their potential as insensitive high-energy-density materials.

On Tautomerism and Amphoterism: An In‐Depth Structural and Physicochemical Characterization of Ammeline and Some of Its Salts

AbstractAmmeline is a simple, readily available, molecular compound, which has been known for nearly 200 years. Despite that, no proper structural characterization of ammeline has been conducted so far. For this reason, the prevalent tautomeric form of ammeline in the solid remained unknown to this date. In the course of this study, its crystal structure was finally established by single‐crystal X‐ray diffraction. In this structure, ammeline is exclusively found as its 4,6‐diamino‐1,3,5‐triazin‐2(1H)‐one tautomer and adopts layered structure with an exceptionally high hydrogen bond density. Ammeline shows an interesting amphoteric behavior. Therefore, the synthesis and structural characterization of some of its salts were carried out to investigate the influence of the protonation degree on its molecular structure. In particular, the crystal structure of silver ammelinate monohydrate was solved as the first reported structure containing deprotonated ammeline. Moreover, the crystal structures of three different modifications of ammelinium perchlorate were elucidated and the transformation conditions between them were studied. Lastly, the crystal structure of ammelinediium diperchlorate monohydrate, containing unprecedented doubly protonated ammeline, was determined. The products’ thermal behavior was studied by differential thermal analysis and thermogravimetric analysis. The perchlorate salts were additionally examined for their potential as insensitive high‐energy‐density materials.

UoC-7: A Bimetallic K-Zn-MOF with an Anionic Framework Based on Fluorinated Trimesate Ligands Exhibiting a Large CO2 Uptake.

In solvothermal reactions of Zn(NO3)2×6H2O with K(H2mF-BTC) or K(H2dF-BTC) in DMF/ethanol or DMA/ethanol solvent mixtures, single crystals of the MOFs UoC-7(1F) and UoC-7(2F) were obtained crystallizing in the hexagonal space group P63/m (no.176) (H3BTC: 1,3,5-benzenetricarboxylic acid; mF-/dF: mono-/difluoro; DMF: N,N-dimethylformamide; DMA: N,N-dimethylacetamide; UoC: University of Cologne). According to the general composition [(CH3)2NH2][K2Zn3(mF-/dF-BTC)3(H2O)]×solvent, UoC-7 consists of an anionic bimetallic framework. The charge is compensated by a (CH3)2NH2 + cation stemming from the (partial) hydrolysis of the solvent. The crystal structure shows large channels along the hexagonal [001] direction, which accommodate the cations as well as solvent molecules. Surface areas (SBET) of 2740 m2/g (UoC-7(1F)) and 1643 m2/g (UoC-7(2F)) were obtained from N2 sorption measurements. UoC-7 shows structural similarities to the MOF NKU-521 with a 5-(1H-tetrazol-5-yl)isophthalate linker. Both MOFs exhibit a 4,7,8T14 topology. Despite smaller channels in UoC-7 compared to NKU-521, the CO2 uptake is considerably higher (~164 cm3/g at 1 bar/293 K) being one of the highest CO2 uptakes observed up to now.

A Triply Linked Copper(III) Dicarbacorrole Dimer.

A triply linked dicarbacorrole dimer (7) was synthesized from a new meso-meso singly linked dicarbacorrole dimer precursor (6) via an oxidative fusion reaction by 2,3-dichloro-5,6-dicyano-p-benzoquinone (DDQ) in the presence of trifluoromethanesulfonic acid (TfOH). Single crystal X-ray structure of 7 adopts a flat conformation with a length as ca. 15.946 Å and a width as 6.903 Å, which can be regarded as a short carbaporphyrinoid tape. Two coordinated Cu ions keeps the +3 oxidation state in 7, as confirmed by NMR spectroscopy, single crystal X-ray diffraction and X-ray photoelectron spectroscopy (XPS). This is in sharp contrast to the Osuka's triply linked tetrapyrrolic corrole dimers, where the inner 3NH form is not stable and thus can only act as a divalent ligand. Due to the non-aromatic nature of dicarbacorrole macrocycle, the largely decreased HOMO-LUMO gap and red-shifted absorption of 7 are best ascribed to the strong electronic interaction between two dipyrromethene-type chromophores. To our knowledge, this is the first fully fused carbaporphyrinoid dimer with β-β, meso-meso, β-β triply linkages prepared to date.

Enhanced High Voltage Stability of Spinel‐Type Structured LiNi0.5Mn1.5O4 Electrodes: Targeted Octahedral Crystal Site Modification

AbstractHigh‐voltage spinel‐type structured LiNi0.5Mn1.5O4 (LNMO) shows promise as a next‐generation high‐energy‐density lithium‐ion battery cathode material, however, capacity decay on extended cycling hinders its widespread adoption, underscoring an urgent need for further development. In this work, we introduce Zn at octahedral 16c crystal sites in LNMO with Fd m space group to improve rate capability and reduce the rapid capacity decay otherwise experienced during extended cycling. The current work resolves the detailed influence of isolated modification at octahedral 16c crystal sites, unveiling the mechanism for these performance improvements. We show that occupation of Zn at previously empty 16c sites prevents the migration of Ni/Mn to adjacent 16c sites, eliminating transformation to a rock‐salt type structured Ni0.25Mn0.75O2 phase above 4.8 V, preventing structure degradation and suppressing voltage polarization. This study provides insights into the fundamental structure‐function relationship of the LNMO battery cathode, pointing to pathways for the crystal structure engineering of materials with superior performance.

Disorder induced band gap lowering in kesterite type Cu2ZnSnSe4 and Ag2ZnSnSe4: a first-principles and special quasirandom structures investigation

Quaternary chalcogenides, i.e. Cu2ZnSnS4, crystallising in the kesterite crystal structure have already been demonstrated as potential building blocks of thin film solar cells, containing only abundant elements and exhibiting power conversion efficiencies of about 14.9% so far. However, due to the potential presence of several structurally similar polymorphs, the unequivocal identification of their ground state crystal structures required the application of more elaborate neutron diffraction experiments. One particular complication arose from the later identified Cu–Zn disorder, present in virtually all thin film samples. Subsequently, it has been shown experimentally that this unavoidable Cu–Zn disorder leads to a band gap lowering in the respective samples. Additional theoretical investigations, mostly based on Monte-Carlo methods, tried to understand the atomistic origin of this disorder induced band gap lowering. Here, we present theoretical results from first-principles calculations based on density functional theory for the disorder induced band gap lowering in kesterite Cu2ZnSnSe4 and Ag2ZnSnSe4, where the Cu–Zn and Ag–Zn disorder is modelled via a supercell approach and special quasirandom structures. Results of subsequent analyses of structural, electronic, and optical properties are discussed with respect to available experimental results, and will provide additional insight and knowledge towards the atomistic origin of the observed disorder induced band gap lowering in kesterite type materials.

Experimental and Computational Insights into the Catalytic Mechanism of Y1-xBaxCoO3-δ Perovskite Oxides with a Controlled Crystal Structure.

The crystal structure of Co-based perovskite oxides (ACoO3) can be controlled by adjusting the A-site elements. In this study, we synthesized Y1-xBaxCoO3-δ (x = 0, 0.5, and 1.0) via a coprecipitation method and investigated their CO oxidation performances. YCoO3 (x = 0; cubic perovskite oxide; Pbnm) shows a higher catalytic performance than Y0.5Ba0.5CoO2.72 (x = 0.5; A-site-ordered double perovskite oxide; P4/nmm), which exhibits high oxygen nonstoichiometric properties, and BaCoO3 (x = 1.0; hexagonal perovskite oxide; P63/mmc), which contains high-valent Co4+ species. To elucidate the reaction mechanism, we conducted isotopic experiments with CO and 18O2. The CO oxidation reaction on YCoO3 proceeds via the Langmuir-Hinshelwood mechanism, which is a surface reaction of CO and O2 gas that does not utilize lattice oxygen. Because of the significantly smaller specific surface area of YCoO3 compared with that of the reference Pt/Al2O3, the bulk features of the crystal structures affect the catalytic reaction. When density functional theory is applied, YCoO3 clearly exhibits semiconducting properties in the ground state with the diamagnetic t2g6eg0 states, which can translate to a magnetic t2g5eg1 configuration upon excitation by a relatively low energy of 0.64 eV. We propose that the unique nature of YCoO3 activates oxygen in the gas phase, thereby enabling the smooth oxidation of CO. This study demonstrates that the bulk properties originating from the crystal structure contribute to the catalytic activity and reaction mechanism.

Synthesis and Properties of BaMTeS (M = Fe, Mn, Zn) and the Disordered Structural Analog BaGe0.5TeS.

A series of tertiary sulfide-tellurides, BaMxTeS (M = Fe, Mn, Zn, Ge), has been synthesized by solid-state synthesis. The compounds assume an orthorhombic crystal structure, described by the Cmcm (No. 63) space group, and are structural analogs of the BaMSO (M = Co, Zn) phases. The properties of all four analogs are investigated by DFT analysis. As only the BaFeTeS analog was prepared as a relatively pure phase, this homologue was subject to further experimental investigations, including heat capacity, magnetometry, and Mössbauer spectroscopy. BaFeTeS exhibits no obvious phase transition between 2 and 300 K, has no paramagnetic behavior, and lacks long-range magnetic ordering. However, the Mössbauer spectra, as well as electrical resistance data, indicate a hidden transition near 200 K that is tentatively explained by a dynamic charge-density-wave mechanism, based on a resonating valence bond (RVB) model.

Coumarin-Phosphazenes: Enhanced Photophysical Properties from Hybrid Materials.

Phosphazenes have drawn a great deal of interest over the past 20 years as a potentially useful building block for the fabrication of fluorescent materials. The main objective of this work is to explore novel derivatives produced by coumarins, a class of chemicals well-known for their photophysical importance, and cyclophosphazenes. UV absorbance, fluorescence emission, quantum yield, and lifetime measurements were conducted to comprehend the optical properties. Furthermore, single-crystal X-ray analysis and theoretical calculations were carried out to confirm the structure of the molecule. The obtained findings collectively confirm the commendable optical properties exhibited by the studied compounds. Moreover, a detailed study of the crystal packing arrangement of DPP-Et-Kum-Et compound crystallized in the P21/n monoclinic space group revealed the presence of stacking interactions between the nonplanar conjugated benzene rings of the coumarins and the rigid diphenyl groups attached to the phosphazene ring. The crystal structure of the DPP-Kum-Me-Me compound is mainly based on classical C-H···O intermolecular hydrogen bonding interactions with an average distance of 2.52 Å. Importantly, the calculated absorption spectra of the compounds are in close agreement with the experimental data, further supporting their interesting electronic properties. Given that the DPP-Et-Kum-Et and DPP-Kum-Et compounds have the theoretically lowest band gaps (4.31 and 4.30 eV, respectively), the activation energies of these compounds were determined by an impedance analyzer using dc conductance values measured at different temperatures. The calculated activation energies for DPP-Et-Kum-Et and DPP-Kum-Et are 104.49 and 100.92 meV, respectively. The results demonstrate that both theoretical and experimental calculations are in agreement with each other and that the DPP-Kum-Et compound has the lowest conductivity.

Structural characterization of ligand binding and pH-specific enzymatic activity of mouse Acidic Mammalian Chitinase.

Chitin is an abundant biopolymer and pathogen-associated molecular pattern that stimulates a host innate immune response. Mammals express chitin-binding and chitin-degrading proteins to remove chitin from the body. One of these proteins, Acidic Mammalian Chitinase (AMCase), is an enzyme known for its ability to function under acidic conditions in the stomach but is also active in tissues with more neutral pHs, such as the lung. Here, we used a combination of biochemical, structural, and computational modeling approaches to examine how the mouse homolog (mAMCase) can act in both acidic and neutral environments. We measured kinetic properties of mAMCase activity across a broad pH range, quantifying its unusual dual activity optima at pH 2 and 7. We also solved high-resolution crystal structures of mAMCase in complex with oligomeric GlcNAcn, the building block of chitin, where we identified extensive conformational ligand heterogeneity. Leveraging these data, we conducted molecular dynamics simulations that suggest how a key catalytic residue could be protonated via distinct mechanisms in each of the two environmental pH ranges. These results integrate structural, biochemical, and computational approaches to deliver a more complete understanding of the catalytic mechanism governing mAMCase activity at different pH. Engineering proteins with tunable pH optima may provide new opportunities to develop improved enzyme variants, including AMCase, for therapeutic purposes in chitin degradation.

Relationship between Resistivity Anomaly and Crystal Structure Parameters in Pb Substituted La(O,F)BiS2

Relationship between Resistivity Anomaly and Crystal Structure Parameters in Pb Substituted La(O,F)BiS₂

Nature-Inspired Gallinamides Are Potent Antischistosomal Agents: Inhibition of the Cathepsin B1 Protease Target and Binding Mode Analysis.

Schistosomiasis, caused by a parasitic blood fluke of the genus Schistosoma, is a global health problem for which new chemotherapeutic options are needed. We explored the scaffold of gallinamide A, a natural peptidic metabolite of marine cyanobacteria that has previously been shown to inhibit cathepsin L-type proteases. We screened a library of 19 synthetic gallinamide A analogs and identified nanomolar inhibitors of the cathepsin B-type protease SmCB1, which is a drug target for the treatment of schistosomiasis mansoni. Against cultured S. mansoni schistosomula and adult worms, many of the gallinamides generated a range of deleterious phenotypic responses. Imaging with a fluorescent-activity-based probe derived from gallinamide A demonstrated that SmCB1 is the primary target for gallinamides in the parasite. Furthermore, we solved the high-resolution crystal structures of SmCB1 in complex with gallinamide A and its two analogs and describe the acrylamide covalent warhead and binding mode in the active site. Quantum chemical calculations evaluated the contribution of individual positions in the peptidomimetic scaffold to the inhibition of the target and demonstrated the importance of the P1' and P2 positions. Our study introduces gallinamides as a powerful chemotype that can be exploited for the development of novel antischistosomal chemotherapeutics.

Atomistic study of intermetallics of Fe–Al–Zn system and their interfacial properties

Galvanizing is an important industrial process to improve the corrosion resistance of advanced high strength steels (AHSSs) that are vital for automotive industries. During galvanizing, nanoscale intermetallic phases with complex crystal structures are formed at the interface between the steel substrate and the zinc overlay. To better understand the nanoscale structures and the interfacial properties between the intermetallics, in this work, we develop a second nearest neighbor (2NN) Fe–Al–Zn ternary Modified Embedded Atom Method (MEAM) potential to describe the crystal structures of the intermetallics, i.e. Fe3Al8, Fe4Zn9 and FeZn13 and to calculate the interfacial structure and energy between them. The developed MEAM potential describes well the complex crystal structures and can be used to investigate the interfacial properties that are difficult to obtain from experiments. The Fe4Zn9, FeZn13 surface energies; the Fe–Fe4Zn9, Fe–FeZn13, Fe3Al8–FeZn13 interfacial energies; and the work of adhesion are calculated with the developed MEAM potential. The results show that FeZn13 crystal orientation has an insignificant effect on the FeZn13 surface energy and the Fe–FeZn13 interfacial energy. A negative interfacial energy is obtained for the Fe–Fe4Zn9 and the Fe–FeZn13 interface. The lowest interfacial energy is obtained in the {100}Fe case. The interfacial energy of Fe3Al8–FeZn13 depends on the surface termination of Fe3Al8 and FeZn13. A low interfacial energy is obtained when the surface termination of Fe3Al8 and FeZn13 are both Fe rich. In contrast, when the surface termination of Fe3Al8 is Al rich or the surface termination of FeZn13 is Zn rich, no low energy, stable interface can be formed between the two phases.

X-ray Structure-Guided Discovery of a Potent Benzimidazole Glutaminyl Cyclase Inhibitor That Shows Activity in a Parkinson's Disease Mouse Model.

The secretory glutaminyl cyclase (sQC) and Golgi-resident glutaminyl cyclase (gQC) are responsible for N-terminal protein pyroglutamation and associated with various human diseases. Although several sQC/gQC inhibitors have been reported, only one inhibitor, PQ912, is currently undergoing clinic trials for the treatment of Alzheimer's disease. We report an X-ray crystal structure of sQC complexed with PQ912, revealing that the benzimidazole makes "anchor" interactions with the active site zinc ion and catalytic triad. Structure-guided design and optimization led to a series of new benzimidazole derivatives exhibiting nanomolar inhibition for both sQC and gQC. In a MPTP-induced Parkinson's disease (PD) mouse model, BI-43 manifested efficacy in mitigating locomotor deficits through reversing dopaminergic neuronal loss, reducing microglia, and decreasing levels of the sQC/gQC substrates, α-synuclein, and CCL2. This study not only offers structural basis and new leads for drug discovery targeting sQC/gQC but also provides evidence supporting sQC/gQC as potential targets for PD treatment.

Stabilizing Bifurcated Hydrogen Bond in 8-Aminoquinoline Appended Peptides.

The hydrogen bonding interaction between an amide N-H and the amide N of the preceding residue is prevalent in proline-containing proteins and peptides. However, the N-H···N hydrogen bonding interaction is rare in non-prolyl natural peptides due to restricted dihedral angles. Herein, we stabilize this type of interaction in 8-aminoquinoline appended non-prolyl peptides through bifurcated N···H···N hydrogen bond. The 8-aminoquinoline-incorporated model peptides 2a-i were designed, synthesized, and the crystal structures of 2a-c and 2i were solved. Analysis of crystal data reveals that the amide N-H of aminoquinoline is involved in bifurcated hydrogen bonding interaction with the nitrogen of the preceding amino acid residue and the nitrogen in quinoline. Analysis of crystal packing, Hirshfeld surface and fingerprint plots confirms that the intermolecular O···H contacts significantly contribute to stabilizing bifurcated N···H···N hydrogen bonding interaction. Furthermore, NMR experiments and CD spectroscopy were conducted to examine the preferred conformation in solution, and the data corroborate with the crystal structure conformation.

Crystal structure, properties and pressure-induced insulator-metal transition in layered kagome chalcogenides

Layered materials with kagome lattice have attracted a lot of attention due to the presence of nontrivial topological bands and correlated electronic states with tunability. In this work, we investigate a unique van der Waals (vdW) material system, A 2 M 3 X 4 (A = K, Rb, Cs; M = Ni, Pd; X = S, Se), where transition metal kagome lattices, chalcogen honeycomb lattices and alkali metal triangular lattices coexist simultaneously. A notable feature of this material is that each Ni/Pd atom is positioned in the center of four chalcogen atoms, forming a local square-planar environment. This crystal field environment results in a low spin state S= 0 of Ni2+/Pd2+. A systematic study of the crystal growth, crystal structure, magnetic and transport properties of two representative compounds, Rb2Ni3S4 and Cs2Ni3Se4, has been carried out on powder and single crystal samples. Both compounds exhibit nonmagnetic p-type semiconducting behavior, closely related to the particular chemical environment of Ni2+ ions and the alkali metal intercalated vdW structure. Additionally, Cs2Ni3Se4 undergoes an insulator-metal transition (IMT) in transport measurements under pressure up to 87.1 GPa without any structural phase transition, while Rb2Ni3S4 shows the tendency to be metalized.