Anion-π interactions in supramolecular architectures

Protonated nucleobases are not fully ionized in their chloride salt crystals and form metastable base pairs further stabilized by the surrounding anions

This paper presents experimental charge-density studies of cytosinium chloride, adeninium chloride hemihydrate and guaninium dichloride crystals based on ultra-high-resolution X-ray diffraction data and extensive theoretical calculations. The results confirm that the cohesive energies of the studied systems are dominated by contributions from intermolecular electrostatic interactions, as expected for ionic crystals. Electrostatic interaction energies (Ees) usually constitute 95% of the total interaction energy. The Ees energies in this study were several times larger in absolute value when compared, for example, with dimers of neutral nucleobases. However, they were not as large as some theoretical calculations have predicted. This was because the molecules appeared not to be fully ionized in the studied crystals. Apart from charge transfer from chlorine to the protonated nucleobases, small but visible charge redistribution within the nucleobase cations was observed. Some dimers of singly protonated bases in the studied crystals, namely a cytosinium-cytosinium trans sugar/sugar edge pair and an adeninium-adeninium trans Hoogsteen/Hoogsteen edge pair, exhibited attractive interactions (negative values of Ees) or unusually low repulsion despite identical molecular charges. The pairs are metastable as a result of strong hydrogen bonding between bases which overcompensates the overall cation-cation repulsion, the latter being weakened due to charge transfer and molecular charge-density polarization.

Ligation-Enhanced π-Hole···π Interactions Involving Isocyanides: Effect of π-Hole···π Noncovalent Bonding on Conformational Stabilization of Acyclic Diaminocarbene Ligands

The reaction of cis-[PdCl₂(CNXyl)₂] (Xyl = 2,6-Me₂C₆H₃) with the aminoazoles [1 H-imidazol-2-amine (1), 4 H-1,2,4-triazol-3-amine (2), 1 H-tetrazol-5-amine (3), 1 H-benzimidazol-2-amine (4), 1-alkyl-1 H-benzimidazol-2-amines, where alkyl = Me (5), Et (6)] in a 2:1 ratio in the presence of a base in CHCl₃ at RT proceeds regioselectively and leads to the binuclear diaminocarbene complexes [(ClPdCNXyl)₂{μ-C(N-azolyl)N(Xyl)C═NXyl}] (7-12; 73-91%). Compounds 7-12 were characterized by C, H, N elemental analyses, high-resolution ESI⁺-MS, Fourier transform infrared spectroscopy, 1D (¹H, ¹³C) and 2D (¹H,¹H-COSY, ¹H,¹H-NOESY, ¹H,¹³C-HSQC, ¹H,¹³C-HMBC) NMR spectroscopies, and X-ray diffraction (XRDn). Inspection of the XRDn data and results of the Hirshfeld surface analysis suggest the presence in all six structures of intramolecular π-hole_isocyanide···π_arene interactions between the electrophilic C atom of the isocyanide moiety and the neighboring arene ring. These interactions also result in distortion of the Pd-C≡N-Xyl fragment from the linearity. Results of density functional theory calculations [M06/MWB28 (Pd) and 6-31G* (other atoms) level of theory] for model structures of 7-9 followed by the topological analysis of the electron density distribution within the framework of Bader's theory (QTAIM method) reveal the presence of these weak interactions also in a CHCl₃ solution, and their calculated strength is 1.9-2.2 kcal/mol. The natural bond orbital analysis of 7-9 revealed that π(C-C)Xyl → π*(C-N)isocyanide charge transfer (CT) takes place along with the intramolecular π-hole_isocyanide···π_arene interactions. The observed π(C-C)_Xyl → π*(C-N)_isocyanide CT is due to ligation of the isocyanide to the metal center, whereas in the cases of the uncomplexed p-CNC₆H₄NC and CNXyl species, the effects of CT are negligible. Available CCDC data were processed from the perspective of isocyanide-involving π-hole···π interactions, disclosed the role of metal coordination in the π-hole donor ability of isocyanides, and verified the π-hole_isocyanide···π_arene interaction effect on the stabilization of the in-conformation in metal-bound acyclic diaminocarbenes.

Silver(i) complexes of bis- and tris-(pyrazolyl)azine derivatives - dimers, coordination polymers and a pentametallic assembly

Silver(i) complexes of 2,4,6-tri(pyrazol-1-yl)pyridine (tpp), 2,4,6-tri(pyrazol-1-yl)pyrimidine (tpym), 2,4,6-tri(pyrazol-1-yl)-1,3,5-triazine (tpt) and 2,4-di(pyrazol-1-yl)-1,3,5-triazine (bpt) are reported. Dinuclear [Ag2(μ-tpp)2(MeCN)2][BF4]2·2MeCN and [Ag2(μ-tpym)2(MeCN)2][BF4]2 are formed from approximately planar [AgL(NCMe)]+ (L = tpp or bpym) centres, which dimerise via apical interactions to the pendant pyrazolyl donor on each ligand. Two polymeric solvatomorph phases [Ag2(μ-tpp)2][BF4]2·nMeNO2 were obtained by crystallising AgBF4 and tpp from nitromethane solution. One is composed of the same dimeric [Ag2(μ-tpp)2]2+ motif as the MeCN solvates, but with semibridging pyrazolyl substitutents replacing the solvent ligands. The other form has helicate [Ag2(μ-tpp)2]2+ dimers linked into chains by unsupported AgAg interactions. In contrast, [Ag5(μ3-tpym)4][BF4]5·2MeNO2 contains discrete pentametallic assemblies, of a flattened [Ag4(μ-tpym)4]4+ molecular square centred by the fifth silver ion. Three helical or linear 1D coordination polymer topologies are described for [Ag(μ-tpt)]X (X- = BF4- or ClO4-), where ditopic tpt ligands bind one silver ion in a [2 + 1] geometry and the other in bidentate, [1 + 1] or monodentate fashion. Finally, [Ag(bpt)]BF4 is a polymer of square planar silver ions linked by bis-bidentate bpt ligands. Most of the tpt and bpt structures include short anionπ contacts to the ligand triazinyl rings. Electrospray mass spectra confirm the oligomeric nature of the Ag/tpym and tpt complexes in MeNO2 solution.

Rhenium(i) based irregular pentagonal-shaped metallacavitands

Neutral ditopic flexible N-donor ligands (Ln = bis(4-(naphtho[2,3-d]imidazol-1-ylmethyl)phenyl)methane, L1 bis(4-(benzimidazol-1-ylmethyl)phenyl)methane, L2 or bis(4-(2-nonylbenzimidazol-1-ylmethyl)phenyl)methane, L3) possessing a bis(4-methylphenyl)methane spacer with two imidazolyl donor units were designed and synthesized. The ligands were utilized to develop metallacavitands analogous to irregular pentagonal-shaped metallacavitands with larger cavities. The metallacavitands 1-4 were assembled from Re2(CO)10, a rigid bis-chelating donor (1,4-dihydroxy-9,10-anthraquinone or chloranilic acid) and Lnvia a solvothermal approach. The ligands and the metallacavitands were characterized by analytical and spectroscopic methods. The molecular structures of 1 and 4 were further confirmed by single crystal X-ray diffraction analysis which revealed that a toluene molecule resides in the hydrophobic cavity. Ln and 1-4 are emissive in DMSO at room temperature. The internal cavity of the metallacavitand acts as a host for aromatic guest molecules. The host-guest interaction properties of 1 with anthracene, naphthalene, nitrobenzene, 2-nitrotoluene, 4-nitrotoluene and 2,4-dinitrotoluene were studied by an emission spectroscopic method.

Halide and hydroxide anion binding in water

The formation of halide and hydroxide anion complexes with two ligands L1 (3,6-bis(morpholin-4-ylmethyl)-1,2,4,5-tetrazine) and L2 (3,6-bis(morpholin-4-ylethyl)-1,2,4,5-tetrazine) was studied in aqueous solution, by means of potentiometric and ITC procedures. In the solid state, HF₂^-, Cl^- and Br^- complexes of H₂L2²⁺ were analysed by single crystal XRD measurements. Further information on the latter was obtained with the use of density functional theory (DFT) calculations in combination with the polarizable continuum model (PCM). The presence of two halide or bifluoride HF₂^- (F-H-F^-) anions forming anion-π interactions, respectively above and below the ligand tetrazine ring, is the leitmotiv of the [(H₂L2)X₂] (X = HF₂, Cl, Br, I) complexes in the solid state, while hydrogen bonding between the anions and protonated morpholine ligand groups contributes to strengthen the anion-ligand interaction, in particular in the case of Cl^- and Br^-. In contrast to the solid state, only the anion : ligand complexes of 1 : 1 stoichiometry were found in solution. The stability of these complexes displays the peculiar trend I^- > F^- > Br^- > Cl^- which was rationalized in terms of electrostatic, hydrogen bond, anion-π interactions and solvent effects. DFT calculations performed on [(H₂L2)X]⁺ (X = F, Cl, Br, I) in PCM water suggested that the ligand assumes a U-shaped conformation to form one anion-π and two salt bridge interactions with the included anions and furnished structural information to interpret the solvation effects affecting complex formation. The formation of hydroxide anion complexes with neutral (not protonated) L1 and L2 molecules represents an unprecedented case in water. The stability of the [L(OH)]^- (L = L1, L2) complexes is comparable to or higher than the stability of halide complexes with protonated ligand molecules, their formation being promoted by largely favourable enthalpic contributions that prevail over unfavourable entropic changes.

Network Formation via Anion Coordination: Crystal Structures Based on the Interplay of Non-Covalent Interactions

We describe the synthesis and the structural characterization of new H₂L(CF₃CO₂)₂ (1) and H₂L(Ph₂PO₄)₂ (2) compounds containing the diprotonated form (H₂L²⁺) of the tetrazine-based molecule 3,6-di(pyridin-4-yl)-1,2,4,5-tetrazine. X-ray diffraction (XRD) analysis of single crystals of these compounds showed that H₂L²⁺ displays similar binding properties toward both anions when salt bridge interactions are taken into account. Nevertheless, the different shapes, sizes and functionalities of trifluoroacetate and diphenyl phosphate anions define quite different organization patterns leading to the peculiar crystal lattices of 1 and 2. These three-dimensional (3D) architectures are self-assembled by a variety of non-covalent forces, among which prominent roles are played by fluorine–π (in 1) and anion–π (in 2) interactions.

Probing Magnetic-Exchange Coupling in Supramolecular Squares Based on Reducible Tetrazine-Derived Ligands

Reducible 3,6-bis(3,5-dimethyl-pyrazolyl)1,2,4,5-tetrazine was employed to isolate supramolecular air-stable [Co₄ ] and [Zn₄ ] squares, which were achieved via careful selection of counterions rather than the use of reducing agents. Magnetic susceptibility studies revealed a strong radical-Co^II exchange coupling (J_rad-Co /hc=-118 cm^-1 , -2J formalism) with a spin ground state of S_T =4, whereas the unreduced analogue revealed negligible coupling between the Co centers (J_Co-Co /hc=-0.64 cm^-1 ). Radical-radical coupling was also probed in the [Zn₄ ] congener, which led to J_rad-rad /hc=-15.9(5) cm^-1 . These results highlight the versatile air-stable coordination chemistry of tetrazine and the importance of exploiting easily reducible delocalized radical to promote strong exchange coupling between spin carriers.

A novel naphthalenediimide-based lanthanide-organic framework with polyoxometalate templates exhibiting reversible photochromism

The first visible-light-responsive photochromic polyoxometalate-templated lanthanide-organic framework (LOF) has been constructed from a carboxyphenyl-substituted naphthalenediimide (NDI) derivative, which displays an unusual four-fold interpenetration of an srs topological network, featuring a variety of anion-π interactions between polyoxoanions and π-acidic NDI moieties, and undergoes a rapid reversible photochromic transformation upon blue light irradiation.

Iodide and triiodide anion complexes involving anion-π interactions with a tetrazine-based receptor

Protonated forms of the tetrazine ligand L2 (3,6-bis(morpholin-4-ylethyl)-1,2,4,5-tetrazine) interact with iodide in aqueous solution forming relatively stable complexes (ΔG° = -11.6(4) kJ mol^-1 for HL2⁺ + I^- = (HL2)I and ΔG° = -13.4(2) kJ mol^-1 for H₂L2²⁺ + I^- = [(H₂L2)I]⁺). When solutions of [(H₂L2)I]⁺ are left in contact with air, crystals of the oxidation product (H₂L2)₂(I₃)₃I·4H₂O are formed. Unfortunately, the low solubility of I₃^- complexes prevents the determination of their stability constants. The crystal structures of H₂L2I₂·H₂O (1), H₂L2(I₃)₂·2H₂O (2) and (H₂L2)₂(I₃)₃I·4H₂O (3) were determined by means of X-ray diffraction analyses. In all crystal structures, it was found that the interaction between I^- and I₃^- with H₂L2²⁺ is dominated by anion interactions with the π electron density of the receptor. Only in the case of 1, the iodide anions involved in close anion-π interactions with the ligand tetrazine ring form an additional H-bond with the protonated morpholine nitrogen of an adjacent ligand molecule. Conversely, in crystals of 2 and 3 there are alternate segregated planes which contain only protonated ligands hydrogen-bonded to cocrystallized water molecules or I₃^- and I^- forming infinite two-dimensional networks established through short interhalogen contacts, making these crystalline products good candidates to behave as solid conductors. In the solid complexes, the triiodide anion displays both end-on and side-on interaction modes with the tetrazine ring, in agreement with density functional theory calculations indicating a preference for the alignment of the I₃^- molecular axis with the molecular axis of the ligand. Further information about geometries and structures of triiodide anions in 2 and 3 was acquired by the analysis of their Raman spectra.

Complexation of halide ions to tyrosine: role of non-covalent interactions evidenced by IRMPD spectroscopy

The binding motifs in the halide adducts with tyrosine ([Tyr + X]^-, X = Cl, Br, I) have been investigated and compared with the analogues with 3-nitrotyrosine (nitroTyr), a biomarker of protein nitration, in a solvent-free environment by mass-selected infrared multiple photon dissociation (IRMPD) spectroscopy over two IR frequency ranges, namely 950-1950 and 2800-3700 cm^-1. Extensive quantum chemical calculations at B3LYP, B3LYP-D3 and MP2 levels of theory have been performed using the 6-311++G(d,p) basis set to determine the geometry, relative energy and vibrational properties of likely isomers and interpret the measured spectra. A diagnostic carbonyl stretching band at ∼1720 cm^-1 from the intact carboxylic group characterizes the IRMPD spectra of both [Tyr + X]^- and [nitroTyr + X]^-, revealing that the canonical isomers (maintaining intact amino and carboxylic functions) are the prevalent structures. The spectroscopic evidence reveals the presence of multiple non-covalent forms. The halide complexes of tyrosine conform to a mixture of plane and phenol isomers. The contribution of phenol-bound isomers is sensitive to anion size, increasing from chloride to iodide, consistent with the decreasing basicity of the halide, with relative amounts depending on the relative energies of the respective structures. The stability of the most favorable phenol isomer with respect to the reference plane geometry is in fact 1.3, -2.1, -6.8 kJ mol^-1, for X = Cl, Br, I, respectively. The change in π-acidity by ring nitration also stabilizes anion-π interactions yielding ring isomers for [nitroTyr + X]^-, where the anion is placed above the face of the aromatic ring.

Fingerprinting the Nature of Anions in Pyrylium Complexes: Dual Binding Mode for Anion-π Interactions

The interplay between noncovalent interactions that involve oxygenated heteroaromatic rings have been studied for the first time in this work. In particular, we report an advance in knowledge-based anion-π interactions together with (C-H)⁺ ⋅⋅⋅anion contacts. To understand how the anion modulates these interactions, the synthesis of pyrylium salts with a variety of anions was performed by using an anionic metathesis methodology. The synthesized pyrylium complexes were classified in series, for example, anions derived from halogens, from oxoacids, from p-block elements, and from transition metals. Crystallographic data, DFT calculations, and NMR spectroscopy methods provided access to an overall insight into the noncovalent behavior of the anion in this kind of system. Based on the DFT calculations and ¹ H NMR spectroscopy, pyrylium protons can be used as chemical tags to detect noncovalent interactions in this type of compound.

Acid-Induced Multicolor Fluorescence of Pyridazine Derivative

Smart luminescent materials that are responsive to external stimuli have received considerable attention. Here, we report a new D-A type 1,2-pyridiazine derivative (3,4,5,6-tetrakis(4-methoxyphenyl)pyridazine (TPP)) exhibiting turn-on fluorescence upon acid exposure both in solution and in the solid state. The protonation of the 1,2-pyridiazine ring caused a variation in the emission colors of the acidification species from blue (406 nm) to orange-red (630 nm) with a huge Δλ_em (224 nm). As a result, a synthetic rainbow of emission in solution could be achieved from one single molecule, and white photoluminescence was readily tuned by controlled protonation. A trifluoroacetic acid (TFA)-sensor film made from TPP was demonstrated as a TFA-sensitive surface with high sensitivity and reversibility. On the basis of these findings, we constructed a solid-state TPP film with a photoacid generator and demonstrated data encryption and decryption via a cascade protonation reaction that was well controlled by UV light.

Structural diversity in the alkaline earth metal compounds of tetra and pentacyanocyclopentadienide

The reaction of the alkaline earth dihalides MCl₂·nH₂O (M = Mg, Ca, Sr, Ba) with the silver salts of cyanocyclopentadienides [C₅(CN)₄X]^- (X = H, CN) yields the corresponding alkaline earth biscyclopentadienides. The pentacyanocyclopentadienides of Mg and Ca and the tetracyanocyclopentadienides of Ca, Sr and Ba were studied by X-ray diffraction. The Mg compound 1a' shows only coordination by water molecules, but numerous hydrogen bridges between coordinated water molecules and pentacyanocyclopentadienide anions and further guest water molecules create a three-dimensional network. The structure of the calcium pentacyanocyclopentadienide 1b shows two inequivalent anions, one uncoordinated and one coordinating via three nitrile groups to three different metal ions. Ca²⁺ and [C₅(CN)₅]^- ions together form a rhombohedral grid structure, in which the voids are filled by the uncoordinated [C₅(CN)₅]^- ion and guest water molecules, all taking part in a hydrogen bond network too. The isostructural Ca and Sr tetracyanocyclopentadienides exhibit eightfold coordinated metal ions, in which both [C₅(CN)₄H]^- anions coordinate to the metals by one cyano group each, and each anion bridging two metal ions. Thus, one-dimensional ribbons of {Ca[C₅(CN)₄H]_4/2}_x are formed, which are interconnected via hydrogen bridges from and to coordinated water molecules to build a three-dimensional network. The barium tetracyanocyclopentadienide contains a ninefold coordinated metal with the anion using three of its nitrile functions for coordination to three different metals. A complicated network is formed by four interpenetrating {Ba[C₅(CN)₄H]₂} helices that are interconnected via the remaining third nitrile function, while the fourth nitrile group always remains uncoordinated. Although all coordinated water molecules are involved in hydrogen bridges, these are not contributing to the formation of the network.

Thermally induced 1D to 2D polymer conversion accompanied by major packing changes in single-crystal-to-single-crystal transformation

The molecular packing in crystals is highly sensitive to temperature and pressure. We report a thermally-induced H-bonded 1D → 2D polymer formation via SCSCT.

Negative thermal expansion in molecular materials

Some mechanisms resulting in negative thermal expansion in molecular materials are summarized.

The structures and properties of anionic tryptophan complexes

IRMPD spectroscopy and electronic structure calculations are employed to identify π–π interactions in ionic tryptophan clusters.

Electron-poor arylenediimides

This review article highlights the emergence of eclectic molecular design principles to realize remarkably strong electron deficient arylenediimide molecules, aspects of their stability and associated applications.

An electron-deficient nanosized polycyclic aromatic hydrocarbon with enhanced anion–π interactions

A super-electron-deficient nano-sized polycyclic aromatic hydrocarbon with six imide groups at the corners has been synthesized, which exhibited enhanced anion–π interactions with various anions.

Design and application of a fluorogenic receptor for selective sensing of cations, small neutral molecules, and anions

An unprecedented single multi-analyte fluorogenic receptor, a sodium salt of N-(methyl-2-thiophenyl)-tyrosine (NaHTyrthio), is reported for the selective sensing of cations (Cu²⁺), small neutral molecules (nitrobenzene and aniline) and anions (F⁻) by variable spectral responses.

Anion–π interactions of highly π-acidic dipyridinium-naphthalene diimide salts

A highly π-acidic dipyridinium-naphthalene diimide acceptor shows anion–π interactions with halides and PF₆⁻.

Chemical sensing with 2D materials

During the last decade, two-dimensional materials (2DMs) have attracted great attention due to their unique chemical and physical properties, which make them appealing platforms for diverse applications in sensing of gas, metal ions as well as relevant chemical entities.

A one-dimensional HgII coordination polymer based on bis-(pyridin-3-ylmeth-yl)sulfane

The reaction of mercury(II) chloride with bis-(pyridin-3-ylmeth-yl)sulfane (L, C12H12N2S) in methanol afforded the title crystalline coordination polymer catena-poly[[di-chlorido-mercury(II)]-μ-bis-(pyridin-3-ylmeth-yl)sulfane-κ2N:N'], [HgCl2L] n . The asymmetric unit consists of one HgII cation, one L ligand and two chloride anions. Each HgII ion is coordinated by two pyridine N atoms from separate L ligands and two chloride anions. The metal adopts a highly distorted tetra-hedral geometry, with bond angles about the central atom in the range 97.69 (12)-153.86 (7)°. Each L ligand bridges two HgII ions, forming an infinite -(Hg-L) n - zigzag chain along the b axis, with an Hg⋯Hg separation of 10.3997 (8) Å. In the crystal, adjacent chains are connected by inter-molecular C-H⋯Cl hydrogen bonds, together with Hg-Cl⋯π inter-actions [chloride-to-centroid distance = 3.902 (3) Å], that form between a chloride anion and the one of the pyridine rings of L, generating a two-dimensional layer extending parallel to (101). These layers are further linked by inter-molecular C-H⋯π hydrogen bonds, forming a three-dimensional supra-molecular network.