Crystal engineering: a holistic view

Crystal engineering, the design of molecular solids, is the synthesis of functional solid-state structures from neutral or ionic building blocks, using intermolecular interactions in the design strategy. Hydrogen bonds, coordination bonds, and other less directed interactions define substructural patterns, referred to in the literature as supramolecular synthons and secondary building units. Crystal engineering has considerable overlap with supramolecular chemistry, X-ray crystallography, materials science, and solid-state chemistry and yet it is a distinct discipline in itself. The subject goes beyond the traditional divisions of organic, inorganic, and physical chemistry, and this makes for a very eclectic blend of ideas and techniques. The purpose of this Review is to highlight some current challenges in this rapidly evolving subject. Among the topics discussed are the nature of intermolecular interactions and their role in crystal design, the sometimes diverging perceptions of the geometrical and chemical models for a molecular crystal, the relationship of these models to polymorphism, knowledge-based computational prediction of crystal structures, and efforts at mapping the pathway of the crystallization reaction.     

Iodinated ortho‐Carboranes as Versatile Building Blocks to Design Intermolecular Interactions in Crystal Lattices

The crystal structures of numerous iodinated ortho‐carboranes have been studied, which has revealed the diversity of intermolecular interactions that these substances can adopt in the solid state. The nature—mostly as it relates to hydrogen and/or halogen bonds—and relative strength of such interactions can be adjusted by selectively introducing substituents onto the cluster, thus enabling the rational design of crystal lattices. In this work we present the newly determined crystal structures of the following iodinated ortho‐carboranes: 9‐I‐1,2‐closo‐C₂B₁₀H₁₁, 4,5,7,8,9,10,11,12‐I₈‐1,2‐closo‐C₂B₁₀H₄, 3,4,5,6,7,8,9,10,11,12‐I₁₀‐1,2‐closo‐C₂B₁₀H₂, 1‐Me‐8,9,10,12‐I₄‐1,2‐closo‐C₂B₁₀H₇, 1,2‐Me₂‐8,9,10,12‐I₄‐1,2‐closo‐C₂B₁₀H₆, and 1,2‐Ph₂‐8,9,10,12‐I₄‐1,2‐closo‐C₂B₁₀H₆. Their 3D supramolecular organization has been thoroughly investigated and compared to similar previously published crystal structures. Such a systematic survey has allowed us to draw some general trends. C_c? H???I? B hydrogen bonds (C_c= cluster carbon atoms) appear to be significant in the growth of the crystal lattices of these compounds, given the acidity of hydrogen atoms bonded to C_c, and the polarization of B? I bonds. These hydrogen bonds can be disrupted by selectively blocking the positions next to C_c, that is, B(3) and B(6), with bulky substituents that prevent iodine atoms from approaching as hydrogen acceptors. Halogen bonds of the type B? I???I? B are frequently observed in most cases, thus suggesting that these interactions could be attractive in boron clusters. In addition, different substituents can be grafted onto the ortho‐carborane surface, thereby providing further possibilities for homomeric or heteromeric molecular assembly.     

Spontaneously organizing metal connectors as supramolecular structure directors of two- and three-dimensional organometallic assemblies

The supramolecular interplay of Me(3)Sn(+) and [M(CN)(2n)](n-) ions (n=3 and 4) with either 4,4'-bipyridine (bpy), trans-bis(4-pyridyl)ethene (bpe) or 4cyanopyridine (cpy) in the presence of H(2)O has been investigated for the first time. Crystal structures of the six novel assemblies: [(Me(3)Sn)(4)Mo(IV)(CN)(8).2 H(2)O.bpy] (8) and [(Me(3)Sn)(4)Mo(IV)(CN)(8).2 H(2)O.bpe] (8 a; isostructural), [(Me(3)Sn)(3)Fe(III)(CN)(6).4 H(2)O.bpy] (9), [(Me(3)Sn)(3)Co(III)(CN)(6).3 H(2)O.3/2 bpy] (10), [(Me(3)Sn)(4)Fe(II)(CN)(6).H(2)O.3/2 bpy] (11), and [(Me(3)Sn)(4)Ru(II)(CN)(6).2 H(2)O.3/2 cpy] (12) are presented. H(2)O molecules are usually coordinated to tin atoms and involved in two significant O-H.N hydrogen bonds, wherein the nitrogen atoms belong either to bpy (bpe, cpy) molecules or to M-coordinated cyanide ligands. Extended supramolecular assemblies such as -CN-->Sn(Me(3))<--O(H.)H.N(L)N.HO(H.)-->Sn(Me(3))<--NC- (L=bpy, bpe or cpy) function as efficient metal connectors (or spacers) in the structures of all six compounds. Only in the three-dimensional framework of 11, one third of all bpy molecules is involved in coordinative N-->Sn bonds. The supramolecular architecture of 9 involves virtually non-anchored (to cyanide N atoms), Me(3)Sn(+) units with a strictly planar SnC(3) skeleton, and two zeolitic H(2)O molecules. Pyrazine (pyz) is surprisingly reluctant to afford assemblies similar to 8-12, however, the genuine host-guest systems [(Me(3)Sn)(4)Mo(CN)(8).0.5pyz] and [(Me(3)Sn)(4)Mo(CN)(8).pym] (pym=pyrimidine) could be isolated and also structurally characterized.     

Rational Modification of the Hierarchy of Intermolecular Interactions in Molecular Crystal Structures by Using Tunable Halogen Bonds

A family of 16 isomolecular salts (3‐XpyH)₂[MX′₄] (3‐XpyH=3‐halopyridinium; M=Co, Zn; X=(F), Cl, Br, (I); X′=Cl, Br, I) each containing rigid organic cations and tetrahedral halometallate anions has been prepared and characterized by X‐ray single crystal and/or powder diffraction. Their crystal structures reflect the competition and cooperation between non‐covalent interactions: N? H???X′? M hydrogen bonds, C? X???X′? M halogen bonds and π–π stacking. The latter are essentially unchanged in strength across the series, but both halogen bonds and hydrogen bonds are modified in strength upon changing the halogens involved. Changing the organic halogen (X) from F to I strengthens the C? X???X′? M halogen bonds, whereas an analogous change of the inorganic halogen (X′) weakens both halogen bonds and N? H???X′? M hydrogen bonds. By so tuning the strength of the putative halogen bonds from repulsive to weak to moderately strong attractive interactions, the hierarchy of the interactions has been modified rationally leading to systematic changes in crystal packing. Three classes of crystal structure are obtained. In type A (C? F???X′? M) halogen bonds are absent. The structure is directed by N? H???X′? M hydrogen bonds and π‐stacking interactions. In type B structures, involving small organic halogens (X) and large inorganic halogens (X′), long (weak) C? X???X′? M interactions are observed with type I halogen–halogen interaction geometries (C? X???X′ ≈ X???X′? M ≈155°), but hydrogen bonds still dominate. Thus, minor but quite significant perturbations from the type A structure arise. In type C, involving larger organic halogens (X) and smaller inorganic halogens (X′), stronger halogen bonds are formed with a type II halogen–halogen interaction geometry (C? X???X′ ≈180°; X???X′? M ≈110°) that is electrostatically attractive. The halogen bonds play a major role alongside hydrogen bonds in directing the type C structures, which as a result are quite different from type A and B.     

A competitive molecular recognition study: syntheses and analysis of supramolecular assemblies of 3,5-dihydroxybenzoic acid and its bromo derivative with some N-donor compounds

A molecular recognition study of 3,5-dihydroxybenzoic acid (1) and its bromo derivative 4-bromo-3,5-dihydroxybenzoic acid (2) with the N-donor compounds 1,2-bis(4-pyridyl)ethene (bpyee), 1,2-bis(4-pyridyl)ethane (bpyea), and 4,4'-bipyridine (bpy) is reported. Thus, the syntheses and structural analysis of molecular adducts 1 a-1 c (1 with bpyee, bpyea, and bpy, respectively) and 2 a-2 c (2 with bpyee, bpyea, and bpy, respectively) are discussed. In all these adducts, recognition between the constituents is established through either O--H...N and/or O--H...N/C--H...O pairwise hydrogen bonds. In all the adducts both OH and COOH functional groups available on 1 and 2 interact with the N-donor compounds, except in 2 a, in which only COOH (COO-) is involved in the recognition process. The COOH moieties in 1 a, 1 b, and 2 b form only single O--H...N hydrogen bonds, whereas in 1 c and 2 c, they form pairwise O--H...N/C--H...O hydrogen bonds. In addition, subtle differences in the recognition patterns resulted in the formation of cyclic networks of different dimensions. In fact, only 1 c forms a four-molecule cyclic moiety, as was already documented in the literature for this kind of assemblies. All complexes have been characterized by single-crystal X-ray diffraction. The supramolecular architectures are quite elegant and simple, with stacking of sheets in all adducts, but a rather complex network with a threefold interpenetration pattern was found in 2 c.     

Isostructurality, polymorphism and mechanical properties of some hexahalogenated benzenes: the nature of halogen...halogen interactions

The nature of intermolecular interactions between halogen atoms, X...X (X = Cl, Br, I), continues to be of topical interest because these interactions may be used as design elements in crystal engineering. Hexahalogenated benzenes (C6Cl(6-n)Br(n), C6Cl(6-n)I(n), C6Br(6-n)I(n)) crystallise in two main packing modes, which take the monoclinic space group P2(1)/n and the triclinic space group P1. The former, which is isostructural to C6Cl6, is more common. For molecules that lack inversion symmetry, adoption of this monoclinic structure would necessarily lead to crystallographic disorder. In C6Cl6, the planar molecules form Cl...Cl contacts and also pi...pi stacking interactions. When crystals of C6Cl6 are compressed mechanically along their needle length, that is, [010], a bending deformation takes place, because of the stronger interactions in the stacking direction. Further compression propagates consecutively in a snakelike motion through the crystal, similar to what has been suggested for the motion of dislocations. The bending of C6Cl6 crystals is related to the weakness of the Cl...Cl interactions compared with the stronger pi...pi stacking interactions. The triclinic packing is less common and is restricted to molecules that have a symmetrical (1,3,5- and 2,4,6-) halogen substitution pattern. This packing type is characterised by specific, polarisation-induced X...X interactions that result in threefold-symmetrical X3 synthons, especially when X = I; this leads to a layered pseudohexagonal structure in which successive planar layers are inversion related and stacked so that bumps in one layer fit into the hollows of the next in a space-filling manner. The triclinic crystals shear on application of a mechanical stress only along the plane of deformation. This shearing arises from the sliding of layers against one another. Nonspecificity of the weak interlayer interactions here is demonstrated by the structure of twinned crystals of these compounds. One of the compounds studied (1,3,5-tribromo-2,4,6-triiodobenzene) is dimorphic, adopting both the monoclinic and triclinic structures, and the reasons for polymorphism are suggested. To summarise, both chemical and geometrical models need to be considered for X...X interactions in hexahalogenated benzenes. The X...X interactions in the monoclinic group are nonspecific, whereas in the triclinic group some X...X interactions are anisotropic, chemically specific and crystal-structure directing.     

Exploring Orthogonal Hydrogen Bonding towards Designing Organic‐Salt‐Based Supramolecular Gelators: Synthesis,Structures, and Anticancer Properties

A series of primary ammonium monocarboxylate (PAM) salts derived from β‐alanine derivatives of pyrene and naphthalene acetic acid, along with the parent acids, were explored to probe the plausible role of orthogonal hydrogen bonding resulting from amide???amide and PAM synthons on gelation. Single‐crystal X‐ray diffraction (SXRD) studies were performed on two parent acids and five PAM salts in the series. The data revealed that orthogonal hydrogen bonding played an important role in gelation. Structure–property correlation based on SXRD and powder X‐ray diffraction data also supported the working hypothesis upon which these gelators were designed. 3‐(4,5‐Dimethylthiazol‐2‐yl)‐2,5‐diphenyltetrazolium bromide (MTT) and cell migration assay on a highly aggressive human breast cancer cell line, MDA‐MB‐231, revealed that one of the PAM salts in the series, namely, PAA.B2 , displayed anticancer properties, and internalization of the gelator salt in the same cell line was confirmed by cell imaging.     

Triple hydrogen bonds direct crystal engineering of metal-assembled complexes: the effect of a novel organic-inorganic module on supramolecular structure

Novel triply hydrogen bonded suprastructures based on [M(tdpd)2(L)2]2- (H2tdpd=1,4,5,6-tetrahydro-5,6-dioxo-2,3-pyrazinedicarbonitrile, L=solvent) and melamine-analogous cations have been synthesized and characterized. The use of anions containing two AAA sets from [M(tdpd)2(L)2]2- together with cations containing one DDD set (A=hydrogen-bond acceptor, D=hydrogen-bond donor) leads to the formation of complementary triply hydrogen bonded modules in the solid state. In all cases, the building module is further extended via additional hydrogen-bonding interactions to produce a tape, and tapes are assembled into sheets. These results show that a hydrogen-bonded module consisting of different kinds of building blocks, one of which is a metal complex that includes hydrogen-bond acceptor sites and the other is a hydrogen-bond donor molecule, will be attractive for constructing metal-containing supramolecular systems by the self-assembly technique.     

Water Sorption Controls Extreme Single-Crystal-to-Single-Crystal Molecular Reorganization in Hydrogen Bonded Organic Frameworks

As hydrogen bonded frameworks are held together by relatively weak interactions, they often form several different frameworks under slightly different synthesis conditions and respond dynamically to stimuli such as heat and vacuum. However, these dynamic restructuring processes are often poorly understood. In this work, three isoreticular hydrogen bonded organic frameworks assembled through charge-assisted amidinium⋅⋅⋅carboxylate hydrogen bonds ( 1^C/C , 1^Si/C and 1^Si/Si ) are studied. Three distinct phases for 1^C/C and four for 1^Si/C and 1^Si/Si are fully structurally characterized. The transitions between these phases involve extreme yet recoverable molecular-level framework reorganization. It is demonstrated that these transformations are related to water content and can be controlled by humidity, and that the non-porous anhydrous phase of 1^C/C shows reversible water sorption through single crystal to crystal restructuring. This mechanistic insight opens the way for the future use of the inherent dynamism present in hydrogen bonded frameworks.     

Modulation of the Sorption Characteristics for an H-bonded porous Architecture by Varying the Chemical Functionalization of the Channel Walls

Five isostructural microporous supramolecular architectures prepared by H-bonded assembly between the hexa-anionic complex [Zr₂(Ox)₇]⁶⁻ (Ox=oxalate, (C₂O₄)²⁻) and tripodal cations (H₃-TripCH₂-R)³⁺ with R=H, CH₃, OH and OBn (Bn=CH₂Ph) are reported. The possibility to obtain the same structure using a mixture of tripodal cations with different R group (R=OH and R=CH₃) has also been successfully explored, providing a unique example of three-component H-bonded porous framework. The resulting SPA-1(R) materials feature 1D pores decorated by R groups, with apparent pore diameters ranging from 3.0 to 8.5 Å. Influence of R groups on the sorption properties of these materials is evidenced through CO₂ and H₂O vapor sorption/desorption experiments, as well as with I₂ capture/release experiments in liquid media. This study is one of the first to demonstrate the possibility of tuning the porosity and exerting precise control over the chemical functionalization of the pores in a given H-bonded structure, without modifying the topology of the reference structure, and thus finely adjusting the sorption characteristics of the material.