Non-covalent surface modification of metal-macrocycle framework with mono-substituted benzenes

Recently, we have reported a metal-macrocycle framework (MMF) with five enantiomerically paired molecular binding pockets that exhibit site-selective guest arrangement on the nano-channel surface in soaking experiments using a variety of guest molecules. The guest inclusion is based largely on molecular exchange between solvent molecules such as CH₃CN and guest molecules on the surface. Herein, we report that the molecular arrangement on the nano-channel surface varies with size, shape and/or chemical properties of functional groups of guests, mono-substituted benzene derivatives, such as benzonitrile, acetophenone and nitrobenzene. In their inclusion complexes, polar nitrile, acetyl and nitro groups serve as molecular anchors to a macrocyclic cavity through hydrogen bonding. Notably, benzonitrile and benzenesulphonic acid bind only to one pair of enantiomeric binding pockets. Such a highly site-selective binding would enable further multi-component surface modifications in the MMF.     

Equilibrium isotope effects on noncovalent interactions in a supramolecular host-guest system

The self-assembled supramolecular complex [Ga(4)L(6)](12-) (1; L = 1,5-bis[2,3-dihydroxybenzamido]naphthalene) can act as a molecular host in aqueous solution and bind cationic guest molecules to its highly charged exterior surface or within its hydrophobic interior cavity. The distinct internal cavity of host 1 modifies the physical properties and reactivity of bound guest molecules and can be used to catalyze a variety of chemical transformations. Noncovalent host-guest interactions in large part control guest binding, molecular recognition and the chemical reactivity of bound guests. Herein we examine equilibrium isotope effects (EIEs) on both exterior and interior guest binding to host 1 and use these effects to probe the details of noncovalent host-guest interactions. For both interior and exterior binding of a benzylphosphonium guest in aqueous solution, protiated guests are found to bind more strongly to host 1 (K(H)/K(D) > 1) and the preferred association of protiated guests is driven by enthalpy and opposed by entropy. Deuteration of guest methyl and benzyl C-H bonds results in a larger EIE than deuteration of guest aromatic C-H bonds. The observed EIEs can be well explained by considering changes in guest vibrational force constants and zero-point energies. DFT calculations further confirm the origins of these EIEs and suggest that changes in low-frequency guest C-H/D vibrational motions (bends, wags, etc.) are primarily responsible for the observed EIEs.     

Design, synthesis, and application of a library of supramolecular structures formed by N-lipidated peptides immobilized on cellulose. Artificial receptors

An array of supramolecular structures formed from N-lipidated peptides attached to cellulose via aminophenylamino-1,3,5-triazine was synthesized. The structures thus prepared were prone to self-organization and to formation of monolayer of "holes" and "pockets" in dynamic equilibrium, structures which were capable of binding small guest molecules very efficiently recognizing the shape, size, and polarity of ligands, thus resembling artificial receptors. Because of the high flexibility of N-lipidated peptides, it is expected that the host adjusts its shape to wrap guest molecules most efficiently. The selectivity and rate of binding was studied by using triphenylmethyl dyes. It was found that the selectivity of binding depends on the structure of the peptide and the N-lipidic fragment of the receptor and varies with the structure of the analyte. Even tiny structural changes in guest molecules were detected by monitoring the alteration of the binding pattern.     

Synthesis of phototrappable shape-shifting molecules for adaptive guest binding

We have designed and synthesized oligosubstituted bullvalenes 1 and 2 as adaptive molecules that can change their shapes in order to bind tightly to a suitable guest. By incorporation of a photolabile o-nitroveratryloxycarbonate (NVOC) group into bullvalenes 1 and 2, tightly binding species can be selectively isolated from a population of hundreds of interconverting structural isomers. Spontaneous strain-assisted Cope rearrangements allow these shape-shifting molecules to exist in a dynamic equilibrium of configurationally distinct valence isomers, as revealed by dynamic NMR and HPLC studies. When NVOC bullvalenes 1 and 2 were exposed to UV light, the cleavage of the NVOC group resulted in a mixture of static isomers of the corresponding bullvalone. Binding studies of NVOC bisporphyrin bullvalene 1 demonstrated that the dynamic isomeric equilibrium shifted in the presence of C(60), favoring configurations with more favorable binding affinities. Irradiation of a mixture of 1 and C(60) with UV light and isolation of the major static isomer yielded an isomer of bisporphyrin bullvalone with a binding affinity for C(60) that was ～2 times larger than that of the nonadapted isomer bisporphyrin bullvalone 41.     

Multicomponent host-guest chemistry of carboxylic acid and phosphonic acid based guests with dendritic hosts: an NMR study

A new way to analyze supramolecular dendritic architectures is reported by making use of (13)C NMR and (31)P NMR. Two ethylene glycol guest molecules have been synthesized containing a (13)C labeled carboxylic acid headgroup (2) and a phosphonic acid headgroup (3). The binding of these guests to urea-adamantyl modified poly(propylene imine) dendrimers has been investigated with (13)C NMR and (31)P NMR next to 1D and 2D (1)H NMR techniques. Different amounts of guest 2 have been added to fifth generation dendrimer 1e, and the observed chemical shift values in (13)C NMR were fitted to a model that assumes 1:1 binding between guest and binding site. An association constant of 400 +/- 95 M(-)(1) is obtained for guest 2 with 41 binding sites per dendrimer. When different amounts of phosphonic acid guest 3 are added to dendrimer 1e, two different signals are observed in (31)P NMR. Deconvolution gives the fractions of free and bound guest, resulting in an association constant of (4 +/- 3) x 10(4) M(-)(1) and 61 +/- 1 binding sites. A statistical analysis shows that guest 2 forms a "polydisperse supramolecular aggregate", while guest 3 is able to form a "monodisperse supramolecular aggregate" when the amount of guest is high enough. The NMR results are compared with dynamic light scattering experiments, and a remarkable agreement is found. Phosphonic acid guest 3 is able to exchange with guest 2, which is in agreement with the obtained association constants, and shows that these techniques can be used to analyze multicomponent dendritic aggregates.     

1H NMR chemical shift calculations as a probe of supramolecular host-guest geometry

The self-assembled supramolecular host [Ga(4)L(6)](12-) (1; L = 1,5-bis[2,3-dihydroxybenzamido]naphthalene) can encapsulate cationic guest molecules within its hydrophobic cavity and catalyze the chemical transformations of bound guests. The cavity of host 1 is lined with aromatic naphthalene groups, which create a magnetically shielded interior environment, resulting in upfield shifted (1-3 ppm) NMR resonances for encapsulated guest molecules. Using gauge independent atomic orbital (GIAO) DFT computations, we show that (1)H NMR chemical shifts for guests encapsulated in 1 can be efficiently and accurately calculated and that valuable structural information is obtained by comparing calculated and experimental chemical shifts. The (1)H NMR chemical shift calculations are used to map the magnetic environment of the interior of 1, discriminate between different host-guest geometries, and explain the unexpected downfield chemical shift observed for a particular guest molecule interacting with host 1.     

Encapsulated guest-host dynamics: guest rotational barriers and tumbling as a probe of host interior cavity space

The supramolecular host assembly [Ga(4)L(6)](12-) (1; L = 1,5-bis[2,3-dihydroxybenzamido]naphthalene) encapsulates cationic guest molecules within its hydrophobic cavity and catalyzes a variety of chemical transformations within its confined interior space. Despite the well-defined structure, the host ligand framework and interior cavity are very flexible and 1 can accommodate a wide range of guest shapes and sizes. These observations raise questions about the steric effects of confinement within 1 and how encapsulation fundamentally changes the motions of guest molecules. Here we examine the motional dynamics (guest bond rotation and tumbling) of encapsulated guest molecules to probe the steric consequences of encapsulation within host 1. Encapsulation is found to increase the Ph-CH(2) bond rotational barrier for ortho-substituted benzyl phosphonium guest molecules by 3 to 6 kcal/mol, and the barrier is found to depend on both guest size and shape. The tumbling dynamics of guests encapsulated in 1 were also investigated, and here it was found that longer, more prolate-shaped guest molecules tumble more slowly in the host cavity than larger but more spherical guest molecules. The prolate guests reduce the host symmetry from T to C(1) in solution at low temperatures, and the distortion of the host framework that is in part responsible for this symmetry reduction is observed directly in the solid state. Analysis of guest motional dynamics is a powerful method for interrogating host structure and fundamental host-guest interactions.     

Investigation on the supramolecular recognition behaviour of sulfonatocalix[6]arene with amino benzoic acid isomers

The formation of the complexation behaviour of host molecules water-soluble p-sulfonatocalix[6]arene (C6AS) with amino benzoic acid (ABA) isomers including o-amino benzoic acid (OABA), m-amino benzoic acid (MABA), and p-amino benzoic acid (PABA) – three guest molecules – has been studied by fluorescence spectrophotometric and nuclear magnetic resonance (NMR) spectroscopy. Experimental conditions including the concentration of C6AS and medium acidity were investigated in detail. The results showed that C6AS forms 1:1 complexes with amino benzoic isomers in water. Their stability constants determined by steady-state fluorescence measurement showed that C6AS has stronger recognition with PABA than with OABA or MABA. Moreover, their stability constants of C6AS complexing with three kinds of guest molecules were the largest at pH = 4.0, indicating C6AS has the strongest recognition ability with the dipolar ion of amino benzoic isomers. In addition, to obtain information about the binding model of the interaction, ¹HNMR studies were carried out. The related mechanism is proposed to explain the complexation processes.     

A versatile tripodal host with cylindrical conformation: solvatomorphism, inclusion behavior, and separation of guests

Tripodal host 2,4,6-tris(1-phenyl-1H-tetrazolylsulfanylmethyl)mesitylene (TPTM) has been synthesized through a facile procedure. As expected, it adopts an all-syn cylindrical configuration, thereby delimiting an inner cavity. To explore the solvatomorphism and inclusion behavior of TPTM, a series of organic and inorganic species were employed as guests to afford 17 inclusion compounds (1, 2, 3 a-3 f, 4 a-4 i) that can be classified into four distinct forms (forms I-IV), under similar conditions. These compounds were characterized by single-crystal and powder X-ray diffraction, and (1)H NMR studies. In compound 1 with form I, one foot of a TPTM molecule inserts into the cavity of an opposite TPTM molecule to form a dimeric "hand-shake" motif with one acetonitrile molecule occupying the void. Compound 2 with form II contains three types of capsule-shaped dimers, each of which holds a CH(2)Cl(2) molecule as the guest. In compounds 3 a-3 f with form III, each pair of TPTM molecules interdigitates to form a capsule-shaped dimeric unit accommodating a guest molecule in the endo-cavity. In compounds 4 a-4 i with form IV, each TPTM molecule makes contact with three nearby TPTM molecules in a "self-including" manner to generate a graphite-like organic layer, and through further superposition to form open hexagonal channels. From the experimental and theoretical results, the intrinsic properties of guest molecules, such as size, shape, and self-interaction, can be regarded as the main factors leading to these solvatomorphism phenomena and the subtle inclusion behavior of TPTM. Thermogravimetric analyses show that the encapsulated guest molecules in these compounds can be evacuated at relatively high temperatures, and this demonstrates the outstanding inclusion capability of TPTM. In addition, for compound 4 a with benzene molecules in the channels, reversible exchange of toluene and separation of xylene isomers on single crystals have been observed.     

Superbowl container molecules

The design, chemical synthesis, guest binding, and self-assembly of tureen-shaped container molecules is presented. With a large noncollapsible interior and five external binding sites, each superbowl container host is shown to bind up to nine guest molecules in well-defined locations.     

Structure-selective dye uptake into an aggregate of a copolymer with linear polyelectrolyte block and hydrophobic block carrying pendant dendritic moiety in water

Selective uptake of various dyes into an aggregate of amphiphilic copolymer consisting of a hydrophilic linear polyelectrolyte block and hydrophobic block carrying pendant dendritic moiety has been investigated in water. The copolymer associated into an aggregate with a hydrophobic interior at concentrations above 0.2 mg cm(-3). The uptake (23 and 36 molecules per aggregate, respectively) of pyrene and Oil Yellow in an aggregate was one order higher than that of benzo[a]pyrene and SudanIII. The hydrophobic dyes are always doped in the interior of the aggregate, but the difference in uptake among dyes may depend on their structure. Even if a large number of guest molecules was doped into the interior of an aggregate, the size of the sphere-like aggregate was conserved. It is suggested that guest molecules are encapsulated into the persisting cavity within and between hydrophobic dendron moieties in an aggregate. Structure-selective uptake reported in this investigation is a unique character of an aggregate of copolymer with dendron moiety because the dendron moiety offers a large void for doping.     

Volatile anesthetic binding to proteins is influenced by solvent and aliphatic residues

The main objective of this work was to characterize VA binding sites in multiple anesthetic target proteins. A computational algorithm was used to quantify the solvent exclusion and aliphatic character of amphiphilic pockets in the structures of VA binding proteins. VA binding sites in the protein structures were defined as the pockets with solvent exclusion and aliphatic character that exceeded minimum values observed in the VA binding sites of serum albumin, firefly luciferase, and apoferritin. We found that the structures of VA binding proteins are enriched in these pockets and that the predicted binding sites were consistent with experimental determined binding locations in several proteins. Autodock3 was used to dock the simulated molecules of 1,1,1,2,2-pentafluoroethane, difluoromethyl 1,1,1,2-tetrafluoroethyl ether, and sevoflurane and the isomers of halothane and isoflurane into these potential binding sites. We found that the binding of the various VA molecules to the amphiphilic pockets is driven primarily by VDW interactions and to a lesser extent by weak hydrogen bonding and electrostatic interactions. In addition, the trend in Delta G binding values follows the Meyer-Overton rule. These results suggest that VA potencies are related to the VDW interactions between the VA ligand and protein target. It is likely that VA bind to sites with a high degree of solvent exclusion and aliphatic character because aliphatic residues provide favorable VDW contacts and weak hydrogen bond donors. Water molecules occupying these sites maintain pocket integrity, associate with the VA ligand, and diminish the unfavorable solvation enthalpy of the VA. Water molecules displaced into the bulk by the VA ligand may provide an additional favorable enthalpic contribution to VA binding. Anesthesia is a component of many health related procedures, the outcomes of which could be improved with a better understanding of the molecular targets and mechanisms of anesthetic action.     

Writing with molecules on molecular printboards

Nanotechnology aspires to create functional materials with characteristic dimensions of the order 1-100 nm. One requirement to make nanotechnology work is to precisely position molecules and nanoparticles on surfaces, so that they may be addressed and manipulated for bottom-up construction of nanoscale devices. Here we review the concept of a "molecular printboard". A molecular printboard is a monolayer of host molecules on a solid substrate on which guest molecules can be attached with control over position, binding strength, and binding dynamics. To this end, cyclodextrins were immobilized in monomolecular layers on gold, on silicon wafers and on glass. Guest molecules (for example, adamantane and ferrocene derivatives) bind to these host surfaces through supramolecular, hydrophobic inclusion interaction. Multivalent interactions are exploited to tune the binding strength and dynamics of the interaction of guest molecules with the printboard. Molecules can be positioned onto the printboard using supramolecular microcontact printing and supramolecular dip-pen nanolithography due to the specific interaction between the 'ink' and the substrate. In this way, nanoscale patterns can be written and erased on the printboard. Currently, the molecular printboard is exploited for nanofabrication, for example in combination with electroless deposition of metals and by means of supramolecular layer-by-layer deposition.     

Load–Collapse–Release Cascades of Amphiphilic Guest Molecules in Charged Dendronized Polymers through Spatial Separation of Noncovalent Forces

The ability to pack guest molecules into charged dendronized polymers (denpols) and the possibility to release these guest molecules from subsequently densely aggregated denpols in a load–collapse–release cascade is described. Charged denpols, which constitute molecular objects with a persistent, well‐defined envelope and interior, are capable of incorporating large amounts of amphiphilic guest molecules. Simultaneously, multivalent ions can coordinate to the surfaces of charged denpols, leading to counterion‐induced aggregation of the already guest‐loaded host structures. Thus, although the local guest concentration in denpol‐based molecular transport might already be initially high due to the dense guest packing inside the dendritic denpol scaffolding, the “local” guest concentration can nonetheless be further increased by packing (through aggregation) of the host–guest complexes themselves. Subsequent release of guest compounds from densely aggregated dendronized polymers is then possible (e.g., through increasing the solution concentration of imidazolium‐based ions). Augmented with this release possibility, the concept of twofold packing of guests, firstly through hosting itself and secondly through aggregation of the hosts, gives rise to a load–collapse–release cascade that strikingly displays the high potential of dendronized macromolecules for future molecular transport applications.     

Anion-templated supramolecular C3 assembly for efficient inclusion of charge-dispersed anions into hydrogen-bonded networks

The binding properties and conformational adaptability of a known nitrate/sulfate receptor N,N'-3-azapentane-1,5-bis[3-(1-aminoethylidene)-6-methyl-3H-pyran-2,4-dione] (L) toward various charge-dispersed monoanions (HSO(3)(-), ClO(4)(-), IO(4)(-), PF(6)(-), and SbF(6)(-)) are considered. These anions template the folding of three HL(+) species through a self-assembly process into a new hollow supramolecular trication. During the self-assembly, all strong hydrogen-bond donors of the podand become coordinatively saturated by interactions with the oxo functionalities from other HL(+) molecules. In that way, only the weak hydrogen-bond-donating groups in the exterior part of the receptor are accessible for anion binding. The investigated anions are accommodated in the hydrophobic pockets of the isomorphous hydrogen-bonded frameworks, which serve as a basis for selective crystallization from the highly competitive anion/solvent systems. This behavior is discussed in terms of size and geometry of the anions as well as the receptor's coordination capabilities to provide the most favorable surroundings for guest inclusion both in solution and in the solid state.     

Molecular‐Dynamics‐Simulation‐Directed Rational Design of Nanoreceptors with Targeted Affinity

Here, we demonstrate the possibility of rationally designing nanoparticle receptors with targeted affinity and selectivity for specific small molecules. We used atomistic molecular‐dynamics (MD) simulations to gradually mutate and optimize the chemical structure of the molecules forming the coating monolayer of gold nanoparticles (1.7 nm gold‐core size). The MD‐directed design resulted in nanoreceptors with a 10‐fold improvement in affinity for the target analyte (salicylate) and a 100‐fold decrease of the detection limit by NMR‐chemosensing from the millimolar to the micromolar range. We could define the exact binding mode, which features prolonged contacts and deep penetration of the guest into the monolayer, as well as a distinct shape of the effective binding pockets characterized by exposed interacting points.     

A fluorescent, shape-persistent dendritic host with photoswitchable guest encapsulation and intramolecular energy transfer

A fluorescent and photoresponsive host based on rigid polyphenylene dendrimers (PPDs) has been synthesized. The key building block for the divergent dendrimer buildup is a complex tetracyclone 12 containing azobenzenyl, pyridyl, and ethynyl entities. The rigidity of polyphenylenes is of crucial importance for a site-specific placement of different functions: eight azobenzene (AB) moieties into the rigid scaffold, a fluorescent perylenetetracarboxdiimide (PDI) into the core, and eight pyridin functions into the interior cavities. AB moieties of host-1 undergo reversible cis-trans photoisomerization and are photostable, as confirmed by various techniques: UV-vis, (1)H NMR, size exclusion chromatography, and fluorescence correlation (FCS). In this system, AB moieties act as photoswitchable hinges and enable control over (i) molecular size, (ii) intramolecular energy transfer between AB and PDI, and (iii) encapsulation and release of guest molecules. The presence of PDI allows not only following the effect of cis-trans photoisomerization on molecular size with highly sensitive FCS but also monitoring the efficiency of the intramolecular energy transfer process (from AB to PDI) by time-resolved optical spectroscopy. Pyridyl functions were incorporated to facilitate guest uptake via hydrogen bonds between the host and guests. Also, we have demonstrated that the photoswitchability of the host can be utilized to actively encapsulate guest molecules into its interior cavities. This novel, light-driven encapsulation mechanism could enable the design of new drug delivery systems.     

丹皮酚及其两种同分异构体与牛血清白蛋白相互作用的热力学研究

在298.15 K下利用等温滴定微量热法研究了丹皮酚(2'-羟基-4'-甲氧基苯乙酮, Pae)及其两种同分异构体(2'-羟 基-5'-甲氧基苯乙酮, Hma; 4'-羟基-3'-甲氧基苯乙酮, Ace)与牛血清白蛋白(BSA)在缓冲溶液(pH≈7.0)中的相互作用. 从药物分子在蛋白质分子上有多种类型相互独立的结合位点的假定出发, 应用Langmuir吸附模型对这三种同分异构体与 BSA 相互作用的量热数据进行了处理. 结果表明, 有两类结合位点存在, 同时计算出了两类结合模式的结合常数、焓变、熵变及吉布斯自由能变等热力学数据. 这两类结合主要以焓驱动为主, 并且在同一类结合位点上, Pae, Hma以及 Ace与BSA结合过程的焓变绝对值依次减小, 这主要是由于客体分子苯环上取代基的相对位置不同而引起热力学数据的差异. 圆二色谱研究表明这三种同分异构体的加入均使BSA的二级结构发生变化, 说明这种生物大分子-药物分子相互作用既包含结合反应也包含小分子诱导BSA分子部分结构改变的过程.     

Designed Synthesis of a Highly Conjugated Hexaethynylbenzene‐Based Host for Supramolecular Architectures

The construction of efficient synthetic functional receptors with tunable cavities, and the self‐organization of guest molecules within these cavities through noncovalent interactions can be challenging. Here we have prepared a double‐cavity molecular cup based on hexaethynylbenzene that possesses a highly π‐conjugated interior for the binding of electron‐rich guests. X‐ray crystallography, NMR spectroscopy, UV/Vis spectroscopy, fluorescent spectroscopy, cyclic voltammetry, and SEM were used to investigate the structures and the binding behaviors. The results indicated that the binding of a guest in one cavity would affect the binding of the same or another guest in the other cavity. The effect of electron transfer in this system suggests ample opportunities for tuning the optical and electronic properties of the molecular cup and the encapsulated guest. The encapsulation of different guests would also lead to different aggregate nanostructures, which is a new way to tune their supramolecular architectures.     

Molecular clips based on propanediurea: exceptionally high binding affinities for resorcinol guests

A series of new receptor molecules derived from 2,4,6,8-tetraazabicyclo[3.3.1]nonane-3,7-dione (propanediurea) is described. These molecules possess a cavity which is defined by two nearly parallel aromatic side walls positioned on top of a bis-urea framework. The resulting "U-shaped" clip molecules are ideal hosts for the complexation of flat aromatic guest molecules. The affinity of these new propanediurea based molecular clips for dihydroxybenzene derivatives is exceptionally high, with association constants up to K(a) = 2 400 000 L mol(-)(1). Comparison of the binding mechanism of a variety of clip and half clip hosts, in conjunction with NMR, IR, and X-ray studies, has enabled the reason for this high binding to be elucidated. It is shown that subtle sub-angstrom changes in the geometry of the clip molecules have a great impact on their binding properties.