Synthesis and supramolecular properties of molecular clips with anthracene sidewalls

Novel molecular clips with anthracene sidewalls (1 a-c) were synthesized; they form stable host-guest complexes with a variety of electron-deficient aromatic and quinoid molecules. According to single-crystal structure analyses of clip 1 c and 1,2,4,5-tetracyanobenzene (TCNB) complex 14@1 b, the clips' anthracene sidewalls have to be compressed substantially during the complex formation to provide attractive pi-pi interactions between the aromatic guest molecule and the two anthracene sidewalls in the complex. The compression and expansion of aromatic sidewalls are calculated by molecular mechanics to be low-energy processes, so the energy required for compression of the anthracene sidewalls during complex formation is apparently overcompensated by the gain in energy resulting from the attractive pi-pi interactions. The finding that complexes of the clips 1 a-c are more stable than those of the corresponding clips 2 a-c can be explained in terms of the larger van der Waals contact surfaces of the anthracene sidewalls in 1 a-c (relative to the naphthalene sidewalls in 2 a-c). Color changes resulting from charge-transfer (CT) bands are observed in complex formation by 1 a-c: from colorless to red or purple with TCNB (14), and from yellow to green with 2,4,7-trinitro-9-fluorenone TNF (17). Independently, the host 1 b and guest 14 fluoresce from their respective excited singlet states, whilst in the complex 14@1 b the charge-transfer state quenches the higher-energy singlet states of the two components, and as a result luminescence is only observed from this new CT state. To the best of our knowledge, complex 14@1 b is the first example of CT luminescence from a host-guest complex. The binding constant determined for the formation of the TCNB complex 14@1 b from a UV/Vis titration experiment (Ka = 12 400 m(-1)) agrees well with the value (K(a) = 12 800 m(-1)) obtained by 1H NMR titration.     

Dynamics in host-guest complexes of molecular tweezers and clips

The dynamics in the host-guest complexes of the molecular tweezers 1 a,b and clips 2 a,b with 1,2,4,5-tetracyanobenzene (TCNB, 3) and tropylium tetrafluoroborate (4) as guest molecules were analyzed by temperature-dependent 1H NMR spectroscopy. The TCNB complexes of tweezers 1 a,b were found to be particularly stable (dissociation barrier: DeltaG(++)=16.8 and 15.7 kcal mol(-1), respectively), more stable than the TCNB complexes of clips 2 a,b and the tropylium complex of tweezer 1 b (dissociation barrier: DeltaG(++)=12.4, 11.2, and 12.3 kcal mol(-1), respectively). A detailed analysis of the kinetic and thermodynamic data (especially the negative entropies of activation found for complex dissociation) suggests that in the transition state of dissociation the guest molecule is still clipped between the aromatic tips of the host molecule. The 1H NMR analysis of the TCNB complexes 3@1 b and 3@2 a at low temperatures (T<-80 degrees C) showed that 3 undergoes fast rotation inside the cavity of tweezer 1 b or clip 2 a (rotational barrier: DeltaG( not equal)=11.7 and 8.3 kcal mol(-1), respectively). This rotation of a guest molecule inside the host cavity can be considered to be the dynamic equilibration of noncovalent conformers. In the case of clip complex 3@2 a the association and rotational barriers are smaller by DeltaDeltaG(++)=3-4 kcal mol(-1) than those in tweezer complexes 3@1 a,b. This can be explained by the more open topology of the trimethylene-bridged clips compared to the tetramethylene-bridged tweezers. Finally, the bromo substituents in the newly prepared clip 2 b have a substantial effect on the kinetics and thermodynamics of complex formation. Clip 2 b forms weaker complexes with (TCNB, 3) and tetracyanoquinodimethane (TCNQ, 12) and a more stable complex with 2,4,7-trinitrofluoren-9-ylidene (TNF, 13) than the parent clip 2 a. These results can be explained by a less negative electrostatic potential surface (EPS) inside the cavity and a larger van der Waals contact surface of 2 b compared to 2 a. In the case of the highly electron-deficient guest molecules TCNB and TCNQ the attractive electrostatic interaction is predominant and hence responsible for the thermodynamic complex stability, whereas in the case of TNF with its extended pi system, dispersion forces are more important for host-guest binding.     

氨基甲酸酯型脱氧胆酸分子钳对氨基酸甲酯的手性识别 研究

以脱氧胆酸为spacer,通过三光气桥连各种芳胺,合成了新的氨基甲酸酯型分子钳受体1～4,这些化合物的结构经IR,^1HNMR和元素分析所证实。利用差光谱滴定法考察了其与D/L氨基酸甲酯的对映选择性识别性能。结果表明,分子钳1～4对所考察的氨基酸甲酯均具有识别能力,其对D-氨基酸甲酯的识别优于对L-氨基酸甲酯的识别。从主客体间的大小形状匹配及几何互补关系等方面对这些受体的识别能力及对映选择性进行了讨论。     

新型鹅去氧胆酸分子钳的设计合成和分子识别性质研究

以鹅去氧胆酸为隔离基, 芳香族化合物为手臂设计合成了一类新型的分子钳, 其结构经¹H NMR, IR, MS及元素分析确证. 利用紫外光谱滴定法考察了其与D/L氨基酸甲酯的对映选择性识别性能. 结果表明, 分子钳3a～3e对所考察的氨基酸甲酯均具有识别能力, 其对L-氨基酸甲酯的识别优于对D-氨基酸甲酯的识别. 从主客体的大小形状匹配及几何互补关系等方面对这些受体的识别能力及对映选择性进行了讨论.     

芳酰胺-吖啶分子钳对中性分子的识别性能. II. 新型吖啶类分子钳的研究

采用差紫外谱法研究了新型芳酰胺-吖啶分子钳(1～7)对苯胺、苯二胺(邻, 间, 对)等中性分子的识别性能. 测定了结合常数(K_a)和自由能变化(ΔG°), 结果表明, 所有的分子钳受体与所考察的客体分子均形成1∶1型超分子配合物. 识别作用的主要推动力为多重氢键、van der Waals等的协同作用. 主客体间尺寸/形状匹配、几何互补等因素对识别性能均有重要的影响. 利用核磁氢谱与计算机模拟作为辅助手段对主要的实验结果与现象进行了解释.     

氨基甲酸酯型脱氧胆酸分子钳对中性分子的识别性能研究

利用差紫外光谱法考察了新型分子钳1～6对苯胺、对硝基苯胺、对甲氧基苯胺等中性分子的识别性能, 测定了25 ℃下, 在CHCl₃中主客体间的结合常数(K_a)和自由能变化(ΔG⁰). 结果表明, 所有分子钳主体对所考察的客体分子显示良好的识别作用, 主客体间形成1∶1型主客体络合物. 识别作用的主要推动力为多重氢键和π-π重叠等的作用. 讨论了主客体间形状、大小匹配和几何互补及识别模式等因素对识别能力的影响, 并利用核磁共振氢谱与计算机模拟作为辅助手段对实验结果进行了解释.     

新型Schiff碱分子钳对中性分子的识别性能研究

采用差紫外光谱法考察了3种新型Schiff碱分子钳对一系列二苯甲酮、芳香二胺的识别性能.测定了主客体间的结合常数(Ka)和自由能变化(ΔG0).结果表明,分子钳对所考察的客体显示良好的识别作用,主客体间形成1:1型超分子配合物.讨论了识别作用的推动力与形状、大小匹配和几何互补等因素对形成主客体配合物的影响,并利用核磁氢谱与计算机模拟作为辅助手段对主要的实验结果与现象进行了解释.     

An efficient molecular docking using conformational space annealing

Molecular docking falls into the general category of global optimization problems because its main purpose is to find the most stable complex consisting of a receptor and its ligand. Conformational space annealing (CSA), a powerful global optimization method, is incorporated with the Tinker molecular modeling package to perform molecular docking simulations of six receptor-ligand complexes (3PTB, 1ULB, 2CPP, 1STP, 3CPA, and 1PPH) from the Protein Data Bank. In parallel, Monte Carlo with the minimization (MCM) method is also incorporated into the Tinker package for comparison. The energy function, consisting of electrostatic interactions, van der Waals interactions, and torsional energy terms, is calculated using the AMBER94 all-atom empirical force field. Rigid docking simulations for all six complexes and flexible docking simulations for three complexes (1STP, 3CPA, and 1PPH) are carried out using the CSA and the MCM methods. The simulation results show that the docking procedures using the CSA method generally find the most stable complexes as well as the native-like complexes more efficiently and accurately than those using the MCM, demonstrating that CSA is a promising search method for molecular docking problems.     

Uptake of Hydrocarbons in Aqueous Solution by Encapsulation in Acyclic Cucurbit[n]uril‐Type Molecular Containers

The ability of two water‐soluble acyclic cucurbit[n]uril (CB[n]) type containers, whose hydrophobic cavity is defined by a glycoluril tetramer backbone and terminal aromatic (benzene, naphthalene) sidewalls, to act as solubilizing agents for hydrocarbons in water is described. ¹H NMR spectroscopy studies and phase‐solubility diagrams establish that the naphthalene‐walled container performs as well as, or better than, CB[7] and CB[8] in promoting the uptake of poorly soluble hydrocarbons into aqueous solution through formation of host–hydrocarbon complexes. The naphthalene‐walled acyclic CB[n] container is able to extract large hydrocarbons from crude oil into aqueous solution.     

Towards the design of neutral molecular tweezers for anion recognition

Molecular tweezers are simple molecular receptors that can be characterized by the presence of two flat pincers separated by a more or less rigid tether. They have the ability to form complexes with a substrate molecule by gripping the substrate between the tips of the tweezers in a similar manner to that of mechanical tweezers. Kl?rner et al. synthesized one of the structurally simplest molecular tweezers, which is reported to bind electrodeficient aromatic and aliphatic substrates as well as organic cations. Complexes between these molecular tweezers and electron-rich aromatic, aliphatic, or anionic substrates have not been observed. Inspired by several recent reports that describe the interaction of hexafluorobenzene with electron-rich sites of molecules, we conducted a theoretical study to show the possibility of building molecular tweezers, based on those synthesized by Kl?rner, which were able to bind to anions and thus increase their potential as molecular receptors. We characterized complexes formed between several fluorinated derivatives of simple tweezers and an iodine anion, and analyzed the nature of the intermolecular interactions as well as the energetics for the process of complexation. The stabilization trend reflected by the energetic results when fluorine substituents were added to benzene rings confirms our hypothesis about the possibility of obtaining neutral tweezers composed of aromatic rings that can bind anions.     

Molecular clips with extended aromatic sidewalls as receptors for electron-acceptor molecules. Synthesis and NMR, photophysical, and electrochemical properties

We have synthesized molecular clips 1 comprising (i) two benzo[k]fluoranthene sidewalls and (ii) a dimethylene-connected benzene bridge that carries two acetoxy (1a), hydroxy (1b), or methoxy (1c) substituents in the para position. Their NMR spectra, single-crystal structures, and photophysical (fluorescence intensity, lifetime, depolarization) and electrochemical properties are discussed. For the purpose of comparison, similar compounds (2 and 3) containing only one benzo[k]fluoranthene unit have been prepared and studied. The strongly fluorescent clips 1 form stable complexes with electron-acceptor guests because of a highly negative electrostatic potential on the inner van der Waals surface of their cavity. The complexation constants in chloroform solution for a variety of guests, determined by NMR and fluorescence titration, are much larger than those of the corresponding anthracene and naphthalene clips (4 and 5), particularly in the case of extended aromatic guests. The effect of the substituents in the para position of the benzene spacer unit of clips 1 is discussed on the basis of the host-guest complex structures obtained by X-ray analysis and molecular mechanics simulations. In the case of 9-dicyanomethylene-2,4,7-trinitrofluorene (TNF) guest, complex formation with clip 1a causes dramatic changes in the photophysical and electrochemical properties: (i) a new charge-transfer band at 600 nm arises, (ii) a very efficient quenching of the strong benzo[k]fluoranthene fluorescence takes place, (iii) shifts of both the first oxidation (clip-centered) and reduction (TNF-centered) potentials are observed, and (iv) reversible disassembling of the complex can be obtained by electrochemical stimulation.     

手性不对称脲联苯二甲酸分子钳的设计合成

以联苯二甲酸为隔离基,手性不对称脲为手臂,设计合成了一类新型的手性分子钳。4个分子钳均为新化合物,其结构均经1H NMR,IR,MS和元素分析所确证,并且考察了其对卤素阴离子Cl-、Br-、I-的识别性能。初步的实验结果表明,这类分子钳不仅可与所考察的卤素阴离子形成1:1型超分子配合物,而且对卤素阴离子具有良好的识别选择性,识别选择性为I->>C l->B r-。     

新型手性不对称脲分子钳受体的设计合成

以芳杂环为隔离基, 手性不对称脲为手臂设计合成了一类新型的分子钳, 其结构经¹H NMR, IR, MS和元素分析所确证, 并且考察了其对卤素阴离子C1^—, Br^—, I^—的识别性能.     

微波促进无溶剂条件下酯键型猪去氧胆酸分子钳的快速有效合成

在微波辐射无溶剂条件下, 以固体K2CO3为载体, 猪去氧胆酸甲酯与芳酰氯反应合成了11个猪去氧胆酸分子钳人工受体. 所有化合物的结构均经1H NMR, IR, MS及元素分析所确证. 同传统方法相比, 该法具有简单、快速、 有效、 对环境友好等优点. 同时考察了这类受体对芳胺和手性分子的识别性能. 结果表明, 这类分子钳受体不但对芳胺具有优良的识别性能, 而且对D/L-氨基酸甲酯具有对映选择性识别性能.     

Excimer fluorescence and structures of the inclusion complexes of β-cyclodextrin with naphthalene and its derivatives

Fluorescence of the inclusion complexes with different compositions formed by naphthalene-h₈, naphthalene-d₈, 2,7-dimethylnaphthalene (DMN), and 2-benzylnaphthalene (BN) with β-cyclodextrin (β-CD) in water was studied. Two types of fluorescence are observed, monomer (MF) and excimer (EF_ fluorescence. The excimer fluorescence of the 2∶2 complex emitted by aggregated light-dispersing crystals forming a precipitate, whereas is the MF is concentrations, EF predominates for the resulting complexes. A proposed structure of the inclusion complexes was derived from MNDO/PM3 semiempirical quantum-chemical calculations. The EF is caused by the structure of the complex, in which both naphthalene molecules are separated by a distance of 4.7 Å: they lie in parallel orientation to each other, whereby one ring is displaced from the other by one-fourth of the length of the naphthalene ring. The complexes of 2,7-DMN and 2-benzylnaphthalene with β-CD do not exhibit EF. For the 2∶2 complex of 2,7-DMN with β-CD, this is due to the fact that the aromatic fragments are removed too far from one another 2-Benzylnaphthalene is unable to form an inclusion complex with β-CD, in whose structure the aromatic fragments inside the cavity could be arranged in parallel planes; instead, it forms a 1∶2 complex with β-CD.     

胆甾类分子钳对氨基酸衍生物的对映选择性识别

用差紫外光谱滴定法考察了以脱氧胆酸作spacer的手性分子钳1～3对一系列α-氨基酸甲酯的对映选择性识别性能。结果表明,分子钳1和2与客体氨基酸甲酯形成1:1型超分子配合物,并显示较好的手性识别能力。分钳3对所考察的氨基酸甲酯均没有明显的识别作用。讨论了主-客体间尺寸/形状匹配、几何互补等因素对形成超分子配合物的影响,并利用计算机模拟作辅助手段对实验结果和现象进行了解释。     

Benzobis(imidazolium)-cucurbit[8]uril complexes for binding and sensing aromatic compounds in aqueous solution

The utilities of benzobis(imidazolium) salts (BBIs) as stable and fluorescent components of supramolecular assemblies involving the macrocyclic host, cucurbit[8]uril (CB[8]), are described. CB[8] has the unusual ability to bind tightly and selectively to two different guests in aqueous media, typically methyl viologen (MV) as the first guest, followed by an indole, naphthalene, or catechol-containing second guest. Based on similar size, shape, and charge, tetramethyl benzobis(imidazolium) (MBBI) was identified as a potential alternative to MV that would increase the repertoire of guests for cucurbit[8]uril. Isothermal titration calorimetry (ITC) studies showed that MBBI binds to CB[8] in a 1:1 ratio with an equilibrium association constant (K(a)) value of 5.7×10(5) M(-1), and that the resulting MBBI·CB[8] complex binds to a series of aromatic second guests with K(a) values ranging from 10(3) to 10(5) M(-1). These complexation phenomena were supported by mass spectrometry, which confirmed complex formation, and a series of NMR studies that showed the expected upfield perturbation of aromatic peaks and of the MBBI methyl peaks. Surprisingly, the binding behavior of MBBI is strikingly similar to that of MV, and yet MBBI offers a number of substantial advantages for many applications, including intrinsic fluorescence, high chemical stability, and broad synthetic tunability. Indeed, the intense fluorescence emission of the MBBI·CB[8] complex was quenched upon binding to the second guests, thus demonstrating the utility of MBBI as a component for optical sensing. Building on these favorable properties, the MBBI·CB[8] system was successfully applied to the sequence-selective recognition of peptides as well as the controlled disassembly of polymer aggregates in water. These results broaden the available guests for the cucurbit[n]uril family and demonstrate potentially new applications.     

Dynamic Properties of Molecular Tweezers with a Bis(2‐hydroxyphenyl)pyrimidine Backbone

4,6‐Bis(2‐hydroxyphenyl)‐2‐alkylpyrimidines with two anthryl or 9‐ethylnylanthryl substituents at the positions para to the OH groups prefer a U‐shaped conformation supported by two intramolecular OH ??? N hydrogen bonds in the solid state and in CDCl₃ solution. The compound with a hexyl substituent on the pyrimidine group and two 9‐ethynylanthryl arms at the hydroxyphenyl groups forms a 1:1 complex with 2,4,7‐trinitrofluorenone. Its association constant K_a was estimated to be 2100 M ^?1 at 298 K, which is larger than those of other molecular tweezers (K_a<1000 M ^?1). DFT calculations suggested that the complex adopts a stable conformation supported by intramolecular hydrogen bonds among the OH groups and the pyrimidine ring as well as by intermolecular π–π interaction between the anthryl groups and 2,4,7‐trinitrofluorenone. Addition of nBu₄NF to a solution of the molecular tweezers or their complexes causes the cleavage of one or two OH ??? N hydrogen bonds, formation of new O ??? HF hydrogen bonds, and changes in the molecular conformation. The resulting structure of the molecular tweezers contains nonparallel anthryl groups, which do not bind the guest molecule. Photochemical measurements on 4,6‐bis(2‐hydroxyphenyl)‐2‐methylpyrimidine with two anthryl substituents showed negligible luminescence (quantum yield ?<0.01), owing to photoinduced electron transfer of the molecule with a U‐shaped structure. However, the O‐hexylated compound exhibits emission from the anthryl groups with ?=0.39.     

Study of the inclusion processes of styrene and alpha-methyl-styrene in beta-cyclodextrin

The inclusion complexes of styrene and alpha-methyl-styrene with beta-cyclodextrin (beta-CD) were investigated by using [1H] NMR titration in solution and X-ray diffraction (XRD) analysis, thermo-gravimetric analysis (TGA), elemental analysis (EA) in the solid state. The inclusion process has been studied by using PM3 quantum-mechanical semi-empirical method. The calculated results are in agreed with the experimental data. All results show that alpha-methyl-styrene has stronger interaction with beta-cyclodextrin than styrene does, so the complex of beta-CD-alpha-methyl-styrene is more stable.     

Hydrogen-bonding-driven preorganized zinc porphyrin receptors for efficient complexation of C60, C70, and C60 derivatives

This paper describes the self-assembly of a new class of foldamer-based molecular tweezers, whose rigid folded conformations are stabilized by intramolecular hydrogen bonding. Two zinc porphyrin units are introduced to the ends of molecular tweezers Zn(2)1 and Zn(2)2, while three zinc porphyrin units are incorporated to the S-shaped bi-tweezers Zn(3)3, which may be regarded as a combination of two Zn(2)1 molecules. Due to the preorganized U-shaped feature, Zn(2)1 and Zn(2)2 are able to strongly complex C60, C70, and C60 derivative 25 in chloroform or toluene in a 1:1 binding stoichiometry, whereas Zn(3)3, which possesses two tweezer units, complexes the guests in a 1:2 stoichiometry. More stable complex Zn(3)3.24 is formed between Zn(3)3 and 24, a linear molecule bearing two C60 moieties at the ends, as a result of the cooperative interaction of two binding sites. Chiral induction is observed for all the three receptors upon complexation with C60-incoporated chiral phenylalanine derivative 29, although the complexation of 29 by the folding receptors is pronouncedly weaker than that of C60 and 25 due to increased steric hindrance. The driving force for the formation of the complexes is the well established pi-pi stacking between the zinc porphyrin and fullerene units. The 1H and 13C NMR, UV-vis, fluorescent, and circular dichroism spectroscopy have been used to investigate the complexing behavior of the folding receptors and the fullerene guests. The association constants of the corresponding complexes in toluene and chloroform (if possible) have been evaluated with the UV-vis and fluorescent titration experiments.