X-ray diffraction and theoretical studies for the quantitative assessment of intermolecular arene-perfluoroarene stacking interactions

The Key Role of Molecular Packing in Luminescence Property: From Adjacent Molecules to Molecular Aggregates

The luminescence materials act as the key components in many functional devices, as well as the detection and imaging systems, which can be permeated in each aspect of modern life, and attract more and more attention for the creative technology and applications. In addition to the diverse properties of organic luminogens, the multiple molecular packing at aggregated states frequently offers new and/or exciting performance. However, there still lacks comprehensive analysis of molecular packing in these organic materials, resulting in an increased gap between molecular design and practical applications. In this review, from the basic knowledge of organic compounds as single molecules, to the discernable property of excimer, charge transfer (CT) complex or self-assembly systems by adjacent molecules, and finally to the opto-electronic performance of molecular aggregates, the relevant factors to molecular packing and practical applications are discussed.

Copper-catalyzed defluorinative arylboration of vinylarenes with polyfluoroarenes

An unprecedented but challenging defluorinative arylboration has been achieved. Enabled by a copper catalyst, an interesting procedure on defluorinative arylboration of styrenes has been established. With polyfluoroarenes as the substrates, this methodology offers flexible and facile access to provide a diverse assortment of products under mild reaction conditions. In addition, by using a chiral phosphine ligand, an enantioselective defluorinative arylboration was also realized, affording a set of chiral products with unprecedented levels of enantioselectivity.

A Multifunctional Contrast Agent for 19F-Based Magnetic Resonance Imaging

Magnetic resonance imaging, MRI, relying on ¹⁹F nuclei has attracted much attention, because the isotopes exhibit a high gyromagnetic ratio (comparable to that of protons) and have 100% natural abundance. Furthermore, due to the very low traces of intrinsic fluorine in biological tissues, fluorine labeling allows easy visualization in vivo using ¹⁹F-based MRI. However, one of the drawbacks of the available fluorine tracers is their very limited solubility in water. Here, we detail the design and preparation of a set of water-compatible fluorine-rich polymers as contrast agents that can enhance the effectiveness of ¹⁹F-based MRI. The agents are synthesized using the nucleophilic addition reaction between poly(isobutylene-alt-maleic anhydride) copolymer and a mixture of amine-appended fluorine groups and polyethylene glycol (PEG) blocks. This allows control over the polymer architecture and stoichiometry, resulting in good affinity to water solutions. We further investigate the effects of introducing additional segmental mobility to the fluorine moieties in the polymer, by inserting a PEG linker between the moieties and the polymer backbone. We find that controlling the polymer stoichiometry and introducing additional segmental mobility enhance the NMR signals and narrow the peak profile. In particular, we assess the impact of the PEG linker on T₂* and T₁ relaxation times, using a series of gradient-recalled echo images with varying echo times, TE, or recovery time, TR, respectively. We find that for equivalent concentrations, the PEG linker greatly increases T₂*, while maintaining high T₁ values, as compared to polymers without this linker. Phantom images collected from these compounds show bright signals over a background with high intensities.

Dynamical Behavior of Aromatic Trimer Complexes in Unimolecular Dissociation Reaction at High Temperatures. Case Studies on C6H6-C6F6-C6H6 and C6H6 Trimer Complexes

The intramolecular vibrational energy redistribution (IVR) dynamics during unimolecular dissociation of aromatic trimers at high temperatures is the primary interest of this study. Chemical dynamics simulations are performed for the unimolecular dissociation of benzene-hexafluorobenzene-benzene (Bz-HFB-Bz) and benzene trimer (Bz-trimer) complexes at a temperature range of 1000-2000 K. Partial dissociation of both the complexes is observed, which leads to a dimer and a monomer in the dynamics. However, the probability of such dissociation was found much lower in the case of the Bz-trimer, which further decreases with the increase of temperature. The rate of partial dissociation of Bz-HFB-Bz is faster at 1500, 1800, and 2000 K, whereas the rate of complete dissociation of the Bz-trimer is significantly faster than Bz-HFB-Bz at all temperatures. This is just the opposite of the corresponding dimer's dissociation, where benzene-hexafluorobenzene (Bz-HFB) dissociates at a faster rate than the benzene dimer (Bz-dimer). Thus, the dissociation dynamics of the trimer is different than that of the dimer. Simulations with excited intramolecular and intermolecular modes of the trimer complexes reveal that energy flows from intermolecular to intramolecular modes of Bz-HFB-Bz more freely than the Bz-trimer, and the dissociation process becomes slower for the former. Calculated activation energies for both types of dynamics are much lower than the corresponding binding energies, which may be due to the anharmonicity. The Arrhenius equation with an anharmonic correction factor is considered to recalculate the activation energy and pre-exponential factor.

Polyhalogenated aminobenzonitriles vs. their co-crystals with 18-crown-6: amino group position as a tool to control crystal packing and solid-state fluorescence

Strengthening (para-isomers) or weakening (ortho-isomers) of π-electron aggregation due to the crystal structure rearrangement results in the bathochromic or hypsochromic shift of the fluorescence maximum.

Widening the Window of Spin-Crossover Temperatures in Bis(formazanate)iron(II) Complexes via Steric and Noncovalent Interactions

Bis(formazanate)iron(II) complexes undergo a thermally induced S = 0 to S = 2 spin transition in solution. Here we present a study of how steric effects and π-stacking interactions between the triarylformazanate ligands affect the spin-crossover behavior, in addition to electronic substituent effects. Moreover, the effect of increasing the denticity of the formazanate ligands is explored by including additional OMe donors in the ligand (7). In total, six new compounds (2–7) have been synthesized and characterized, both in solution and in the solid state, via spectroscopic, magnetic, and structural analyses. The series spans a broad range of spin-crossover temperatures (T_1/2) for the LS ⇌ HS equilibrium in solution, with the exception of compound 6 which remains high-spin (S = 2) down to 210 K. In the solid state, 6 was shown to exist in two distinct forms: a tetrahedral high-spin complex (6a, S = 2) and a rare square-planar structure with an intermediate-spin state (6b, S = 1). SQUID measurements, ⁵⁷Fe Mössbauer spectroscopy, and differential scanning calorimetry indicate that in the solid state the square-planar form 6b undergoes an incomplete spin-change-coupled isomerization to tetrahedral 6a. The complex that contains additional OMe donors (7) results in a six-coordinate (NNO)₂Fe coordination geometry, which shifts the spin-crossover to significantly higher temperatures (T_1/2 = 444 K). The available experimental and computational data for 7 suggest that the Fe···OMe interaction is retained upon spin-crossover. Despite the difference in coordination environment, the weak OMe donors do not significantly alter the electronic structure or ligand-field splitting, and the occurrence of spin-crossover (similar to the compounds lacking the OMe groups) originates from a large degree of metal–ligand π-covalency.

A series of Fe(II) complexes with formazanate ligands are reported, and ligand substituent effects on structure and spin-crossover properties are examined. These ligand modifications allow isolation of compounds with tetrahedral geometries in both low- and high-spin ground states as well as an intermediate-spin square-planar complex. Steric properties, π-stacking interactions, and additional donor substituents lead to a wide range of spin-crossover temperatures (T_1/2) in this class of compounds.

Co-crystals of polyhalogenated diaminobenzonitriles with 18-crown-6: effect of fluorine on the stoichiometry and supramolecular structure

Fluorine in the ortho-position of diaminobenzonitrile promotes the formation of the N–H⋯NC bond which results in a 3D supramolecular structure of the co-crystal.

Directing the Crystal Packing in Triphenylphosphine Gold(I) Thiolates by Ligand Fluorination

We explore herein the supramolecular interactions that control the crystalline packing in a series of fluorothiolate triphenylphosphine gold(I) compounds with the general formula [Au(SR_F)(Ph₃P)] in which Ph₃P = triphenylphosphine and SR_F = SC₆F₅, SC₆HF₄-4, SC₆F₄(CF₃)-4, SC₆H₃F₂-2,4, SC₆H₃F₂-3,4, SC₆H₃F₂-3,5, SC₆H₄(CF₃)-2, SC₆H₄F-2, SC₆H₄F-3, SC₆H₄F-4, SCF₃, and SCH₂CF₃. We use for this purpose (i) DFT electronic structure calculations and (ii) the quantum theory of atoms in molecules and the non-covalent interactions index methods of wave function analyses. Our combined experimental and computational approach yields a general understanding of the effects of ligand fluorination in the crystalline self-assembly of the examined systems, in particular, about the relative force of aurophilic contacts compared with other supramolecular interactions. We expect this information to be useful in the design of materials based on gold coordination compounds.

No regioselectivity for the steroid α-face in cocrystallization of exemestane with aromatic cocrystal formers based on phenanthrene and pyrene

The anti-cancer steroidal drug exemestane presents significantly different behavior in cocrystallization with arenes compared with the previously explored steroid progesterone. Mechanochemical and solution-based cocrystallization of exemestane with hydroxy derivatives of phenanthrene and pyrene leads to the formation of cocrystals exhibiting clear O–H···O type arene-steroid hydrogen bonds. So far, exemestane and 1-hydroxypyrene have been observed to form only one type of cocrystal, with the 1:1 stoichiometric ratio of the two components. However, there are two stoichiometric variations of the cocrystal of 9-hydroxyphenanthrene and exemestane, with the arene:steroid stoichiometric ratio of either 1:1 or 1:2. Importantly, although cocrystallization of progesterone with the same arene cocrystal formers was previously reported to take place regioselectively through α···π contacts between the α-face of the steroid and the π-electron surface of the arene, the herein explored cocrystals of exemestane reveal α···π and β···π contacts, as well as sidewise interactions involving the arene π-system and different edges of the steroid molecule. The loss of regioselectivity for the steroid α-face in cocrystallization with the two monohydroxylated arenes is tentatively explained by the highly positive electrostatic surface potential of the steroid β-face and a diminished number of C–H groups on the α-face of exemestane compared with progesterone.

Columnar Stacking of Partially Fluorinated [4]Helicenes: C-H⋅⋅⋅F Interactions Change the Stacking Orientation

The partial fluorination of polycyclic aromatic hydrocarbons often produces a layered crystal packing, where fluorinated aromatic surfaces are stacked over nonfluorinated aromatic surfaces. Herein, we report the synthesis and crystal packing of partially fluorinated [4]helicenes with steric congestion resulting from H and F atoms in the fjord region. F₆ -[4]Helicene forms head-to-tail columnar stacks consisting of an alternate arrangement of perfluorinated and nonfluorinated naphthalene moieties. With decreasing fluorine content, aromatic stacking switched from arene-fluoroarene (Ar^H -Ar^F ) hetero-stacking to Ar^H -Ar^H /Ar^F -Ar^F homo-stacking with the help of intermolecular C-H⋅⋅⋅F contacts in the fjord region. As a result, head-to-head columnar stacks appear. Therefore, the conventional Ar^H -Ar^F stacking motif is not always applicable to F_n -[4]helicenes with twisted π-surfaces.

Interplay of π-stacking and inter-stacking interactions in two-component crystals of neutral closed-shell aromatic compounds: periodic DFT study

This paper bridges the gap between high-level ab initio computations of gas-phase models of 1 : 1 arene–arene complexes and calculations of the two-component (binary) organic crystals using atom–atom potentials. The studied crystals consist of electron-rich and electron-deficient compounds, which form infinite stacks (columns) of heterodimers. The sublimation enthalpy of crystals has been evaluated by DFT periodic calculations, while intermolecular interactions have been characterized by Bader analysis of the periodic electronic density. The consideration of aromatic compounds without a dipole moment makes it possible to reveal the contribution of quadrupole–quadrupole interactions to the π-stacking energy. These interactions are significant for heterodimers formed by arenes with more than 2 rings, with absolute values of the traceless quadrupole moment (Q_zz) larger than 10 D Å. The further aggregation of neighboring stacks is due to the C–H⋯F interactions in arene/perfluoroarene crystals. In crystals consisting of arene and an electron-deficient compound such as pyromellitic dianhydride, aggregation occurs due to the C–H⋯O interactions. The C–H⋯F and C–H⋯O inter-stacking interactions make the main contribution to the sublimation enthalpy, which exceeds 150 kJ mol⁻¹ for the two-component crystals formed by arenes with more than 2 rings.

The interplay of π-stacking and inter-stacking interactions in two-component organic crystals without conventional hydrogen bonds.

Impact of molecular packing rearrangement on solid-state fluorescence: polyhalogenated N-hetarylamines vs. their co-crystals with 18-crown-6

Relationship between the hetarylamine chemical structure, crystal packing in homo- and co-crystals, and fluorescence effects (quenching, bathochromic and hypsochromic shifts).

Two cadmium(II) fluorous coordination compounds tuned by different bipyridines

Fluorine is the most electronegative element and can be used as an excellent hydrogen-bond acceptor. Fluorous coordination compounds exhibit several advantageous properties, such as enhanced high thermal and oxidative stability, low polarity, weak intermolecular interactions and a small surface tension compared to hydrocarbons. C-H...F-C interactions, although weak, play a significant role in regulating the arrangement of the organic molecules in the crystalline state and stabilizing the secondary structure. Two cadmium(II) fluorous coordination compounds formed from 2,2'-bipyridine, 4,4'-bipyridine and pentafluorobenzoate ligands, namely catena-poly[[aqua(2,2'-bipyridine-κ²N,N')(2,3,4,5,6-pentafluorobenzoato-κO)cadmium(II)]-μ-2,3,4,5,6-pentafluorobenzoato-κ²O:O'], [Cd(C₇F₅O₂)₂(C₁₀H₈N₂)(H₂O)]_n, (1), and catena-poly[[diaquabis(2,3,4,5,6-pentafluorobenzoato-κO)cadmium(II)]-μ-4,4'-bipyridine-κ²N:N'], [Cd(C₇F₅O₂)₂(C₁₀H₈N₂)(H₂O)₂]_n, (2), have been synthesized solvothermally and structurally characterized. Compound (1) shows a one-dimensional chain structure composed of Cd-O coordination bonds and is stabilized by π-π stacking and O-H...O hydrogen-bond interactions. Compound (2) displays a one-dimensional linear chain structure formed by Cd-N coordination interactions involving the 4,4'-bipyridine ligand. Adjacent one-dimensional chains are extended into two-dimensional sheets by O-H...O hydrogen bonds between the coordinated water molecules and adjacent carboxylate groups. Moreover, the chains are further linked by C-H...F-C interactions to afford a three-dimensional network. In both structures, hydrogen bonding involving the coordinated water molecules is a primary driving force in the formation of the supramolecular structures.

Stable negative differential resistance in porphyrin based σ–π–σ monolayers grafted on silicon

Two Si–porphyrin hybrid monolayers showed room temperature negative differential resistance (NDR) property. The monolayer with a fluorophenyl porphyrin moiety showed a better peak-to-valley ratio due to compact packing.

Electron transport via phenyl–perfluorophenyl interaction in crystals of fluorine-substituted dibenzalacetones

Although substitution with fluorine creates stability in organic electronic materials by altering the molecular crystal packing, the charge transport properties of the materials are significantly affected.

Biomolecular chemistry of isopropyl fibrates

Isopropyl 2-[4-(4-chlorobenzoyl)-phenoxy]-2-methylpropanoic acid and isopropyl 2-(4-chlorophenoxy)-2-methylpropanoate, also known as fenofibrate and isopropyl (iPr) clofibrate, are hypolipidemic agents of the fibrate family. In a previously reported triclinic structure of fenofibrate (polymorph I), the methyl groups of the iPr moiety are located symmetrically about the carboxylate group. We report a new monoclinic form (polymorph II) of fenofibrate and a first structural description of iPr clofibrate, and in these the methyl groups are placed asymmetrically about the carboxylate group. In particular, the dihedral (torsion) angle between the hydrogen atom on the secondary C and the C atom of the carboxyl group makes a 2.74° angle about the ester O···C bond in the symmetric fenofibrate structure of polymorph I, whereas the same dihedral angle is 45.94° in polymorph II and -30.9° in the crystal structure of iPr clofibrate. Gas-phase density functional theory (DFT) geometry minimizations of fenofibrate and iPr clofibrate result in lowest energy conformations for both molecules with a value of about ±30° for this same angle between the OC-O-C plane and the C-H bond of the iPr group. A survey of crystal structures containing an iPr ester group reveals that the asymmetric conformation is predominant. Although the hydrogen atom on the secondary C atom of the iPr group is located at a comparable distance from the carbonyl oxygen in the symmetric and asymmetric fenofibrate (2.52 and 2.28 Å) and the iPr clofibrate (2.36 Å) structures, this hydrogen atom participates in a puckered five-membered ring arrangement in the latter two that is unlike the planar arrangement found in symmetric fenofibrate (polymorph I). Polar molecular surface area values indicate fenofibrate and iPr clofibrate are less able to act as acceptors of hydrogen bonds than their corresponding acid derivatives. Surface area calculations show that dynamic polar molecular surface area values of the iPr esters of the fibrates are lower than those of their acids, implying that the fibrates have better membrane permeability and a higher absorbability and hence are better prodrugs when these agents need to be orally administered.

Structure and morphology of coevaporated pentacene-perfluoropentacene thin films

The structural properties of coevaporated thin films of pentacene (PEN) and perfluoropentacene (PFP) on SiO(2) were studied using x-ray reflectivity and grazing incidence x-ray diffraction. Reciprocal space maps of the coevaporated thin films with different volume fractions reveal the coexistence of two different molecular mixed PEN-PFP phases together with the pure PEN and PFP crystallites. The crystal structure of PEN:PFP blends does not change continuously with volume fraction, instead the proportion of the appropriate phases changes, as seen from the diffraction analysis. Additional temperature dependent experiments reveal that the fraction of the two mixed PEN-PFP phases varies with growth temperature. The λ-phase (molecular plane parallel to the substrate) is metastable and induced by low growth temperature. The σ-phase (molecular plane nearly perpendicular to the substrate) is thermally stable and nucleates predominantly at high growth temperatures.

Aromatic rings in chemical and biological recognition: energetics and structures

This review describes a multidimensional treatment of molecular recognition phenomena involving aromatic rings in chemical and biological systems. It summarizes new results reported since the appearance of an earlier review in 2003 in host-guest chemistry, biological affinity assays and biostructural analysis, data base mining in the Cambridge Structural Database (CSD) and the Protein Data Bank (PDB), and advanced computational studies. Topics addressed are arene-arene, perfluoroarene-arene, S⋅⋅⋅aromatic, cation-π, and anion-π interactions, as well as hydrogen bonding to π systems. The generated knowledge benefits, in particular, structure-based hit-to-lead development and lead optimization both in the pharmaceutical and in the crop protection industry. It equally facilitates the development of new advanced materials and supramolecular systems, and should inspire further utilization of interactions with aromatic rings to control the stereochemical outcome of synthetic transformations.