Analysis and Improvement of an Anion‐Templated Rotaxane Synthesis

A series of new rotaxanes with axles different in length was prepared. Following the synthetic protocol utilizing a known anion template effect (Scheme 1), surprisingly low yields in the order of 2–5% were obtained (Scheme 3), which furthermore significantly depended on the nature of the stopper (Fig. 1). Variations in the synthetic procedures and computational results from Monte Carlo simulations allowed us to analyze the origin of these findings: The rotaxane wheel 3 acts as a noncovalently bound ‘protecting group' for the stopper nucleophile. The protection of the nucleophilic phenolate O‐atom depends much on the steric demands of the stoppers (see 2 vs. 10 ) which induce different conformations of the wheel. Based on this model, an improved synthetic scheme is suggested.     

Modular Synthesis and Dynamics of a Variety of Donor–Acceptor Interlocked Compounds Prepared by Click Chemistry

A series of donor–acceptor [2]‐, [3]‐, and [4]rotaxanes and self‐complexes ([1]rotaxanes) have been synthesized by a threading‐followed‐by‐stoppering approach, in which the precursor pseudorotaxanes are fixed by using Cu^I‐catalyzed Huisgen 1,3‐dipolar cycloaddition to attach the required stoppers. This alternative approach to forming rotaxanes of the donor–acceptor type, in which the donor is a 1,5‐dioxynaphthalene unit and the acceptor is the tetracationic cyclophane cyclobis(paraquat‐p‐phenylene), proceeds with enhanced yields relative to the tried and tested synthetic strategies, which involve the clipping of the cyclophane around a preformed dumbbell containing π‐electron‐donating recognition sites. The new synthetic approach is amenable to application to highly convergent sequences. To extend the scope of this reaction, we constructed [2]rotaxanes in which one of the phenylene rings of the tetracationic cyclophane is perfluorinated, a feature which significantly weakens its association with π‐electron‐rich guests. The activation barrier for the shuttling of the cyclophane over a spacer containing two triazole rings was determined to be (15.5±0.1) kcal mol^?1 for a degenerate two‐station [2]rotaxane, a value similar to that previously measured for analogous degenerate compounds containing aromatic or ethylene glycol spacers. The triazole rings do not seem to perturb the shuttling process significantly; this property bodes well for their future incorporation into bistable molecular switches.     

One‐Pot Mechanosynthesis with Three Levels of Molecular Self‐Assembly: Coordination Bonds,Hydrogen Bonds and Host–Guest Inclusion

Liquid‐assisted grinding (LAG) was used to combine three levels of molecular self‐assembly into a one‐pot mechanochemical approach for the construction of metal–organic materials. The approach was applied for the construction of three adducts of cobalt(II) dibenzoylmethanate with isonicotinamide, nicotinamide and imidazole, to screen for their inclusion compounds. The one‐pot process consists of: i) The coordination‐driven binding of addends to the equatorially‐protected metal ion, resulting in “wheel‐and‐axle”‐shaped complexes; ii) self‐assembly of resulting complexes by way of hydrogen‐bonded synthons to form metal–organic inclusion hosts; iii) in situ inclusion of the grinding liquid in the resulting host. This approach provided quantitatively and within 20 min the known inclusion compounds of the bis(isonicotinamide) adduct in a single synthetic step. Changing the liquid phase in LAG was used to explore the inclusion behaviour of new wheel‐and‐axle adducts with nicotinamide and imidazole, revealing several inclusion compounds, as well as two polymorphs, of the bis(nicotinamide) host. Preliminary results suggest that one‐pot LAG is superior to solution synthesis in screening for metal–organic inclusion compounds. The difference between the methods is rationalised in terms of reactant solubility and solvent competition. In contrast to the nicotinamide adduct, the bis(imidazole) adduct did not form inclusion compounds. The difference in the inclusion properties of the two adducts is rationalised by structural information gathered by single crystal and powder X‐ray diffraction.     

Optimization of headspace sampling using solid‐phase microextraction for chloroanisoles in cork stoppers and gas chromatography–ion‐trap tandem mass spectrometric analysis

In a study aiming to characterize cork off‐flavour for quality control purposes, chloroanisoles were extracted and identified from cork stoppers by means of solid‐phase microextraction (SPME)–gas chromatography–ion‐trap mass spectrometry (GC–ITMS). An experimental design procedure was used to investigate the effects of some experimental parameters on the SPME of 2,4‐dichloroanisole, 2,6‐dichloroanisole, and 2,4,6‐trichloroanisole from cork stoppers by using a Carboxen‐PDMS 75 μm fibre. Variables such as extraction temperature, extraction time, and percentage of ethanol added to the matrix were optimized to improve extraction efficiency of chloroanisoles onto SPME fibre. Instrumental analysis was performed by GC–ITMS in the MS/MS mode. Preliminary analyses on standard solutions allowed selection of the appropriate ionization mode (i. e. electron impact or chemical ionization), providing for each analyte the highest instrumental response. In order to find polynomial functions describing the relationships between variables and responses, the analytical responses, i.e. the chromatographic peak areas, were processed by using the backward multiple regression analysis. For all the analytes the operating conditions providing the highest extraction yield inside the experimental domain considered were found.     

Fast,metadynamics‐based method for prediction of the stereochemistry‐dependent relative free energies of ligand–receptor interactions

The computational approach applicable for the molecular dynamics (MD)‐based techniques is proposed to predict the ligand–protein binding affinities dependent on the ligand stereochemistry. All possible stereoconfigurations are expressed in terms of one set of force‐field parameters [stereoconfiguration‐independent potential (SIP)], which allows for calculating all relative free energies by only single simulation. SIP can be used for studying diverse, stereoconfiguration‐dependent phenomena by means of various computational techniques of enhanced sampling. The method has been successfully tested on the β₂‐adrenergic receptor (β₂‐AR) binding the four fenoterol stereoisomers by both metadynamics simulations and replica‐exchange MD. Both the methods gave very similar results, fully confirming the presence of stereoselective effects in the fenoterol‐β₂‐AR interactions. However, the metadynamics‐based approach offered much better efficiency of sampling which allows for significant reduction of the unphysical region in SIP. © 2014 Wiley Periodicals, Inc.     

Organic–inorganic hybrid networks by the sol–gel process and subsequent photopolymerization

Organic–inorganic hybrid materials were prepared by a convenient two‐step curing procedure based on sol–gel condensation and subsequent photopolymerization. Novel bismethacrylate‐based hybrid monomers with pendant, condensable alkoxysilane groups were prepared by Michael addition and possessed number‐average molecular weights between 580 and 1600 g/mol. The formation of inorganic networks by sol–gel condensation of the alkoxysilane groups in the presence of aqueous methacrylic acid was monitored with rheological measurements. The condensation conversion was monitored with solid‐state ²⁹Si cross‐polarization/magic‐angle spinning NMR spectroscopy. Subsequent photopolymerization led to organic–inorganic hybrid networks and low volume shrinkage, ranging from 4.2 to 8.3%, depending on the molecular weight of the hybrid monomer applied. Highly filled composite materials with glass filler fractions greater than 75% showed attractive mechanical properties with Young's moduli of 2700–6200 MPa. © 2001 John Wiley & Sons, Inc. J Polym Sci Part A: Polym Chem 39: 4274–4282, 2001     

Broadband Light‐Harvesting Molecular Triads with High FRET Efficiency Based on the Coumarin–Rhodamine–BODIPY Platform

Broadband capturing and FRET‐based light‐harvesting molecular triads, CRBs, based on the coumarin–rhodamine–BODIPY platform were rationally designed and synthesized. The absorption band of CRBs starts from blue–green to yellow–orange regions (330–610 nm), covering the strong radiation scope of sunlight. The peripheral coumarin and BODIPY chromophore energy could transfer to the central acceptor rhodamine by a one‐step direct way. The energy of the coumarin moiety could also transfer to the BODIPY unit, subsequently transferring to the rhodamine core by two‐step sequential ways. Both the efficiencies of the coumarin moiety and the BODIPY unit to the rhodamine core in CRBs, determined by two different ways, are very high.     

Assessment of the hemolysis and endothelial cell cytotoxicity induced by residual linear alkylbenzene sulfonates on pharmaceutical rubber stoppers based on HPLC‐ESI‐MS

This study was designed to develop a high‐performance liquid chromatographic–electrospray ionization–mass spectrometry (HPLC‐ESI‐MS) method for quantitative determination of residual surfactant linear alkylbenzene sulfonate (LAS) compounds on pharmaceutical rubber stoppers. An HPLC‐ESI‐MS method was developed for separation and determination of five LAS homologs (C10–C14) under gradient conditions using methanol and ammonium acetate as mobile phases. Hemolysis activity of residual LAS compounds was analyzed by spectrophotometry. Expression of interleukin (IL)‐6 and tumor necrosis factor (TNF)‐α in human umbilical vein endothelial cells (HUVECs) after LAS compound treatment was examined by enzyme‐linked sorbent assay. LAS compounds were well separated and determined by the established gradient conditions. The linear range was 0.05–8 µg/mL with correlation coefficients ≥0.997. Recoveries were from 73 to 134% and the relative standard deviation was <13.7%. There was a correlation between hemolysis rate and LAS compounds concentration when it was ≥0.8 µg/cm². LAS compounds decreased the viability of HUVECs and promoted the production of IL‐6 and TNF‐α. The developed analytical method was successful for quantitative determination of residual LAS compounds on pharmaceutical rubber stoppers and it is important to monitor and control the amount of LAS compounds on rubber stoppers. Copyright © 2015 John Wiley & Sons, Ltd.     

Size Complementarity of Macrocyclic Cavities and Stoppers in Amide-Rotaxanes

New [2]rotaxanes were prepared by the threading and the slipping procedure, the latter having the advantage of not needing templating interactions. As a consequence, the first [2]rotaxane consisting of a tetraamide macrocycle and a pure hydrocarbon thread was synthesized (see 12a in Scheme 2). Sterically matching wheels and axles being the basic requirement of a successful slipping approach to rotaxanes, mono- and bishomologous wheels 5b , c with larger diameters than the parent 5a were synthesized and mechanically connected to amide axles 10a – c which were stoppered with blocking groups of different spatial demand (Scheme 1). The deslipping kinetics of the resulting rotaxanes 8a – c and 9a , b were measured and compared; it emerges that even slight increases in the wheel size require larger stoppers to stabilize the mechanical bond. Moreover, when the deslipping rate of 8a (amide wheel and amide axle) was determined in either DMF or THF, a strong dependence on the solvent polarity, which is caused by a differing extent of intramolecular H-bonds between the wheel and the axle, was observed. As expected, no such dependence was detected for rotaxane 12a (amide wheel and hydrocarbon axle) whose components cannot interact via H-bonds. The comparison of the sterically matching pairs of macrocycles and blocking groups, found by a systematic fitting based on the results of slipping and deslipping experiments, with other rotaxane types bearing similar stoppers allows conclusions concerning the relative cavity size of wheels of various structure.     

Multi‐center nature of heterogeneous Ziegler–Natta catalysts: TREF confirmation

A new approach to detailed Tref analysis of ethylene/α‐olefin copolymers prepared with multi‐center polymerization catalysts is developed. It is based on resolution of complex Tref curves into elemental components described with the Lorentz distribution function. This approach was applied to the study of a series of ethylene/1‐butene copolymers prepared with a supported Ti‐based catalyst. The analysis showed that the copolymers, which, on average, contain from 6.5 to 3.5 mol % of 1‐butene, consist of seven discrete components with different compositions, ranging from a completely amorphous material with a 1‐butene content of > 15–20 mol %, to two highly crystalline components with 1‐butene contents < 1 mol %. A comparison of these Tref results with the data on the molecular weight distribution of the copolymers (based on resolution of their GPC curves) shows that Tref and GPC data provide complimentary information on the properties of active centers in the catalysts in terms of the molecular weights of the material they produce and their ability to copolymerize α‐olefins with ethylene. Tref analysis of copolymers produced at different reaction times showed that the active centers responsible for the formation of various Tref components differ in the rates of their formation and in stability. The centers that produce copolymer molecules with a high 1‐butene content are formed rapidly but decay rapidly as well whereas the centers producing copolymer molecules with a low 1‐butene content are formed more slowly but are more stable. © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 4351–4362, 2005     

Sensitive Detection of Small Molecule–Protein Interactions on a Metal–Insulator–Metal Label‐Free Biosensing Platform

The need to develop label‐free biosensing devices that enable rapid analyses of interactions between small molecules/peptides and proteins for post‐genomic studies has increased significantly. We report a simple metal–insulator–metal (MIM) geometry for fabricating a highly sensitive detection platform for biosensing. MIM substrates consisting of an Au–PMMA–Ag nanolayer were extensively studied using both theoretical and experimental approaches. By monitoring reflectivity changes at the normal incidence angle, we observed molecular interactions as the thickness of the biolayer increased on the substrate surface. These interactions included the adsorption of various proteins (Mw=6–150 kD) and interactions between small molecules (Mw≤2 kD) and the immobilized proteins. The interaction of designed monosaccharide‐modified designed peptides with various lectins was also clearly detected. These interactions could not be detected by the conventional Au‐only substrate. Thus, the MIM approach affords a powerful label‐free biosensing device that will aid our understanding of protein interactions and recognition.     

Organic sol–gel synthesis of microporous molecular networks containing spirobifluorene and tetraphenylmethane nodes

The microporous molecular networks based on rigid tetrafunctional units are synthesized via organic sol–gel polymerization of 2,2′,7,7′‐tetraamino‐9,9′‐spirobifluorene (TASBF) and/or tetrakis(4‐aminophenyl)methane (TAPM) with a diisocyanate, hexamethylene diisocyanate (HDI), or p‐phenylene diisocyanate. This study is performed as an extension of our previous report on the first organic sol–gel method, which enabled the synthesis of microporous molecular networks via a two‐stage mechanism involving the formation of colloidal dispersions of the nanoparticulate molecular networks and their subsequent growth to monolithic networks on solvent evaporation. The sol–gel‐synthesized molecular networks obtained by incorporating TASBF as a network former show improved porosity, processability, and thermal stability than the TAPM‐based system. The improved porosity of TASBF‐based networks is attributed to higher rigidity of the spirobifluorene compared with the tetraphenylmethane units. We also demonstrate the synthesis of mixed organic molecular networks by sol–gel copolymerization of the two network formers, TASBF and TAPM, and a diisocyanate monomer. The sol–gel transformation of TASBF/TAPM/HDI occurred at longer reaction times with increasing the amount of TASBF in the TASBF/TAPM/HDI mixture. The results indicate that the organic sol–gel method can be further optimized by adjusting various synthesis parameters to create new functional organic molecular network materials. © 2013 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2013     

Solvent‐ and Light‐Controlled Unidirectional Transit of a Nonsymmetric Molecular Axle Through a Nonsymmetric Molecular Wheel

The development of a pseudorotaxane motif capable of performing unidirectional threading and dethreading processes under control of external stimuli is particularly important for the construction of processive linear motors based on rotaxanes and, at least in principle, it discloses the possibility to access to rotary motors based on catenanes. Here, we report a strategy to obtain the solvent‐controlled unidirectional transit of a molecular axle through a molecular wheel. It is based on the use of appropriately designed molecular components, the essential feature of which is their non‐symmetric structure. Specifically they are an axle containing a central electron‐acceptor 4,4′‐bipyridinium core functionalized with a hexanol chain at one side, and a stilbene unit connected through a C6 chain at the other side, and a heteroditopic tris(phenylureido)‐calix[6]arene wheel. In apolar solvents the axle threads into the wheel from its upper rim and with the end carrying the OH group, giving an oriented pseudorotaxane structure. After a stoppering reaction, which replaces the small hydroxy group with a bulky diphenylacetyl moiety, and replacement of the apolar solvent with a polar one, dethreading occurs through the slippage of the stilbene unit from the lower rim of the wheel, that is, in the same direction of the threading process. The essential role played by the stilbene unit to achieve the unidirectional transit of the axle through the wheel, and to tune the dethreading rate by light is also demonstrated.     

Specificity of Furanoside–Protein Recognition through Antibody Engineering and Molecular Modeling

Recognition of furanosides (five‐membered ring sugars) by proteins plays important roles in host–pathogen interactions. In comparison to their six‐membered ring counterparts (pyranosides), detailed studies of the molecular motifs involved in the recognition of furanosides by proteins are scarce. Here the first in‐depth molecular characterization of a furanoside–protein interaction system, between an antibody (CS‐35) and cell wall polysaccharides of mycobacteria, including the organism responsible for tuberculosis is reported. The approach was centered on the generation of the single chain variable fragment of CS‐35 and a rational library of its mutants. Investigating the interaction from various aspects revealed the structural motifs that govern the interaction, as well as the relative contribution of molecular forces involved in the recognition. The specificity of the recognition was shown to originate mainly from multiple CH–π interactions and, to a lesser degree, hydrogen bonds formed in critical distances and geometries.     

Spin–Orbit Contributions in High‐Spin Nitrenes/Carbenes: A Hybrid CASSCF/MRMP2 Study of Zero‐Field Splitting Tensors

Zero‐field splitting (ZFS) tensors ( D tensors) of organic high‐spin oligonitrenes/oligocarbenes up to spin‐septet are quantitatively determined on the basis of quantum chemical calculations. The spin–orbit contributions, D ^SO tensors are calculated in terms of a hybrid CASSCF/MRMP2 approach, which was recently proposed by us. The spin–spin counterparts, D ^SS tensors are computed based on McWeeny–Mizuno’s equation in conjunction with the RODFT spin densities. The present calculations show that more than 10 % of ZFS arises from spin–orbit interactions in the high‐spin nitrenes under study. Contributions of spin‐bearing site–site interactions are estimated with the aid of a semi‐empirical model for the D tensors and found to be ca. 5 % of the D ^SO tensor. The analysis of intermediate states reveal that the largest contributions to the calculated D ^SO tensors are attributed to intra‐site spin flip excitations and delocalized π and π* orbitals play an important role in the inter‐site spin–orbit interactions.     

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.     

Length‐Dependent Conductance of Molecular Wires and Contact Resistance in Metal–Molecule–Metal Junctions

Molecular wires are covalently bonded to gold electrodes—to form metal–molecule–metal junctions—by functionalizing each end with a ? SH group. The conductance of a wide variety of molecular junctions is studied theoretically by using first‐principles density functional theory (DFT) combined with the nonequilibrium Green′s function (NEGF) formalism. Based on the chain‐length‐dependent conductance of the series of molecular wires, the attenuation factor β is obtained and compared with the experimental data. The β value is quantitatively correlated to the molecular HOMO–LUMO gap. Coupling between the metallic electrode and the molecular bridge plays an important role in electron transport. A contact resistance of 6.0±2.0 KΩ is obtained by extrapolating the molecular‐bridge length to zero. This value is of the same magnitude as the quantum resistance.     

On‐Surface Synthesis and Characterization of Triply Fused Porphyrin–Graphene Nanoribbon Hybrids

On‐surface synthesis offers a versatile approach to prepare novel carbon‐based nanostructures that cannot be obtained by conventional solution chemistry. Graphene nanoribbons (GNRs) have potential for a variety of applications. A key issue for their application in molecular electronics is in the fine‐tuning of their electronic properties through structural modifications, such as heteroatom doping or the incorporation of non‐benzenoid rings. In this context, the covalent fusion of GNRs and porphyrins (Pors) is a highly appealing strategy. Herein we present the selective on‐surface synthesis of a Por–GNR hybrid, which consists of two Pors connected by a short GNR segment. The atomically precise structure of the Por–GNR hybrid has been characterized by bond‐resolved scanning tunneling microscopy (STM) and noncontact atomic force microscopy (nc‐AFM). The electronic properties have been investigated by scanning tunneling spectroscopy (STS), in combination with DFT calculations, which reveals a low electronic gap of 0.4 eV.     

Palladium‐Catalyzed Intramolecular Trost–Oppolzer‐Type Alder–Ene Reaction of Dienyl Acetates to Cyclopentadienes

A new approach to the synthesis of highly substituted cyclopentadienes, indenes, and cyclopentene‐fused heteroarenes by means of the Pd‐catalyzed Trost–Oppolzer‐type intramolecular Alder–ene reaction of 2,4‐pentadienyl acetates is described. This unprecedented transformation combines the electrophilic features of the Tsuji–Trost reaction with the nucleophilic features of the Alder–ene reaction. The overall outcome can be perceived as a hitherto unknown “acid‐free” iso‐Nazarov‐type cyclization. The versatility of this strategy was further demonstrated by the formal synthesis of paucifloral F, a resveratrol‐based natural product.     

Tetrathiafulvalene‐Based Mixed‐Valence Acceptor–Donor–Acceptor Triads: A Joint Theoretical and Experimental Approach

This work presents a joint theoretical and experimental characterisation of the structural and electronic properties of two tetrathiafulvalene (TTF)‐based acceptor–donor–acceptor triads (BQ–TTF–BQ and BTCNQ–TTF—BTCNQ; BQ is naphthoquinone and BTCNQ is benzotetracyano‐p‐quinodimethane) in their neutral and reduced states. The study is performed with the use of electrochemical, electron paramagnetic resonance (EPR), and UV/Vis/NIR spectroelectrochemical techniques guided by quantum‐chemical calculations. Emphasis is placed on the mixed‐valence properties of both triads in their radical anion states. The electrochemical and EPR results reveal that both BQ–TTF–BQ and BTCNQ–TTF–BTCNQ triads in their radical anion states behave as class‐II mixed‐valence compounds with significant electronic communication between the acceptor moieties. Density functional theory calculations (BLYP35/cc‐pVTZ), taking into account the solvent effects, predict charge‐localised species (BQ ^{. ?}–TTF–BQ and BTCNQ ^{. ?}–TTF–BTCNQ) as the most stable structures for the radical anion states of both triads. A stronger localisation is found both experimentally and theoretically for the BTCNQ–TTF–BTCNQ anion, in accordance with the more electron‐withdrawing character of the BTCNQ acceptor. CASSCF/CASPT2 calculations suggest that the low‐energy, broad absorption bands observed experimentally for the BQ–TTF–BQ and BTCNQ–TTF–BTCNQ radical anions are associated with the intervalence charge transfer (IV‐CT) electronic transition and two nearby donor‐to‐acceptor CT excitations. The study highlights the molecular efficiency of the electron‐donor TTF unit as a molecular wire connecting two acceptor redox centres.