分子识别指导下的有机分子设计、合成和组装——世纪交替时代的有机化学

在21世纪即将来临之际,有机化学将面临生命科学、环境科学和材料科学越来越多的挑战。本文回顾了在分子识别指导下的有机分子的设计、合成和组装这个新领域的诞生和发展,认为这个领域将成为新世纪有机化学发展的一个重要方向。它的发展和应用不仅使得有机化学可能较好地面对新挑战,同时能推动有机合成化学自身的发展。     

Modified Nucleosides,Nucleotides and Nucleic Acids via Click Azide-Alkyne Cycloaddition for Pharmacological Applications

The click azide = alkyne 1,3-dipolar cycloaddition (click chemistry) has become the approach of choice for bioconjugations in medicinal chemistry, providing facile reaction conditions amenable to both small and biological molecules. Many nucleoside analogs are known for their marked impact in cancer therapy and for the treatment of virus diseases and new targeted oligonucleotides have been developed for different purposes. The click chemistry allowing the tolerated union between units with a wide diversity of functional groups represents a robust means of designing new hybrid compounds with an extraordinary diversity of applications. This review provides an overview of the most recent works related to the use of click chemistry methodology in the field of nucleosides, nucleotides and nucleic acids for pharmacological applications.     

Selective Host Molecules Obtained by Dynamic Adaptive Chemistry

Up till 20 years ago, in order to endow molecules with function there were two mainstream lines of thought. One was to rationally design the positioning of chemical functionalities within candidate molecules, followed by an iterative synthesis–optimization process. The second was the use of a “brutal force” approach of combinatorial chemistry coupled with advanced screening for function. Although both methods provided important results, “rational design” often resulted in time‐consuming efforts of modeling and synthesis only to find that the candidate molecule was not performing the designed job. “Combinatorial chemistry” suffered from a fundamental limitation related to the focusing of the libraries employed, often using lead compounds that limit its scope. Dynamic constitutional chemistry has developed as a combination of the two approaches above. Through the rational use of reversible chemical bonds together with a large plethora of precursor libraries, one is now able to build functional structures, ranging from quite simple molecules up to large polymeric structures. Thus, by introduction of the dynamic component within the molecular recognition processes, a new perspective of deciphering the world of the molecular events has aroused together with a new field of chemistry. Since its birth dynamic constitutional chemistry has continuously gained attention, in particular due to its ability to easily create from scratch outstanding molecular structures as well as the addition of adaptive features. The fundamental concepts defining the dynamic constitutional chemistry have been continuously extended to currently place it at the intersection between the supramolecular chemistry and newly defined adaptive chemistry, a pivotal feature towards evolutive chemistry.     

罗丹明荧光探针在生化分析中的应用

罗丹明荧光探针作为生物学研究中使用最广泛的荧光探针之一,广泛地应用于活体细胞内小分子的检验、生物大分子的分析以及复杂生物体系的研究等方面.罗丹明荧光探针在生化分析中的应用研究融合了分子生物学、分析化学、有机化学等多个学科.是当今化学研究的热点领域.本文综述了近年罗丹明荧光探针在生化分析中的应用进展,并对其未来的发展趋势进行了展望.     

Trichlorosilane mediated asymmetric reductions of the C=N bond

Chiral amines are key components in numerous bioactive molecules. The development of efficient and economical ways to access molecules containing this functional group still remains a challenge at the forefront of synthetic chemistry. Of the methods that do exist, the trichlorosilane mediated organocatalytic reduction of ketimines offers significant potential as an alternative strategy. In this perspective, we wish to highlight the progress made in the past decade in this field and offer a direct quantitative comparison to transition-metal mediated process.     

The bioinorganic and medicinal chemistry of carboranes: from new drug discovery to molecular imaging and therapy

The role of carboranes in medicinal chemistry has diversified in recent years and now extends into areas of drug discovery, molecular imaging, and targeted radionuclide therapy. An introduction to carborane chemistry is provided to familiarize the non-expert with some key properties of these molecules, followed by an overview of current medicinally-orientated research involving carboranes. The broad-ranging nature of this research is illustrated, with emphasis placed on recent highlights and advances in this field.     

STM studies of single molecules: molecular orbital aspects

As a fundamental and frequently referred concept in modern chemistry, the molecular orbital plays a vital role in the science of single molecules, which has become an active field in recent years. For the study of single molecules, scanning tunneling microscopy (STM) has been proven to be a powerful scientific technique. Utilizing specific distribution of the molecular orbitals at spatial, energy, and spin scales, STM can explore many properties of single molecule systems, such as geometrical configuration, electronic structure, magnetic polarization, and so on. Various interactions between the substrate and adsorbed molecules are also understood in terms of the molecular orbitals. Molecular engineering methods, such as mode-selective chemistry based on the molecular orbitals, and resonance tunneling between the molecular orbitals of the molecular sample and STM tip, have stimulated new advances of single molecule science.     

An Efficient Protocol for the Liquid-Phase Synthesis of Furano- and Pyranoquinolines

In recent years, the liquid-phase synthesis of small heterocyclic molecules has been a subject of intense research activity, since it represents one of the most promising ways to generate small molecular libraries in the field of combinatorial chemistry. Substituted quinolines offer a high degree of structure diversity and have proven to be very important in medicinal chemistry.     

Characteristics and Dynamics of Superexcited States of Molecules

Characteristics and dynamics of superexcited states of molecules are interpreted by emphasizing their significant roles in various molecular dynamic processes. The states are expected to open a new field of physics and chemistry; but because of their complexity, they should be investigated by using the possible multifarious means from the various view points. The interplays between theory and experiment and also between the two theories, dynamics theory and quantum chemistry, are crucial to reveal this world. More systematic studies are required for the superexcited states of polyatomic molecules.     

The chemistry of organic nanomaterials

The development of nanotechnology using organic materials is one of the most intellectually and commercially exciting stories of our times. Advances in synthetic chemistry and in methods for the investigation and manipulation of individual molecules and small ensembles of molecules have produced major advances in the field of organic nanomaterials. The new insights into the optical and electronic properties of molecules obtained by means of single-molecule spectroscopy and scanning probe microscopy have spurred chemists to conceive and make novel molecular and supramolecular designs. Methods have also been sought to exploit the properties of these materials in optoelectronic devices, and prototypes and models for new nanoscale devices have been demonstrated. This Review aims to show how the interaction between synthetic chemistry and spectroscopy has driven the field of organic nanomaterials forward towards the ultimate goal of new technology.     

From chemical topology to molecular machines

The chemistry of molecules displaying novel topologies has experienced an explosive development in the course of the last 25 years. The fast growth of this field originates to a large extent from the new templated synthetic methods which allow one to prepare these compounds at a real macroscopic level. Our group, in particular, has proposed a particularly efficient copper(I)-based template synthesis of a large variety of catenanes and rotaxanes at an early stage, participating in the revival of molecular topology. One of the highlights of the field has been the synthesis of the trefoil knot, a particularly challenging target. This object is not only an aesthetically attractive molecule but it also displays interesting properties in relation to coordination chemistry and chirality. A highly promising extension of molecular topology is that of molecular machines. By combining the specific properties of catenanes and rotaxanes, i.e., marked flexibility and propensity to undergo large amplitude motions, and coordination chemistry, it has been possible to elaborate and study a large variety of molecular machines. A recent example is that of an adjustable receptor, based on a [3]rotaxane attached to two mobile porphyrinic plates. This compound and related molecules will lead to “molecular presses” and, eventually, to molecular machines usable in solution to catalyse reactions or change the conformation of given substrates.     

Shape‐Persistent Organic Cage Compounds by Dynamic Covalent Bond Formation

One area of supramolecular chemistry involves the synthesis of discrete three‐dimensional molecules or supramolecular aggregates through the coordination of metals. This field also concerns the chemistry of supramolecular cage compounds constructed through the use of such coordination bonds. To date, there exists a broad variety of supramolecular cage compounds; however, analogous organic cage compounds formed with only covalent bonds are relatively rare. Recent progress in this field can be attributed to important advances, not least the application of dynamic covalent chemistry. This concept makes it possible to start from readily available precursors, and in general allows the synthesis of cage compounds in fewer steps and usually higher yields.     

Recent progress of core-substituted naphthalenediimides: highlights from 2010

Core-substituted naphthalenediimides (cNDIs) are rapidly emerging as a powerful strategy to create functional nanomaterials and their implications in biological and supramolecular chemistry are significant. Recent developments in the synthesis of cNDIs have allowed several groups to probe the function of this interesting class of dye molecules in a molecular and supramolecular sense. Core-substitution of the NDI can be seen as an opportunity to extend the planar, rigid core and could be used to prepare novel structures for applications in organic, biosupramolecular chemistry, biomedicine, materials science and organic solar cells. In this Emerging Area, we provide up-to-date recent progress in the field of cNDIs. We begin with a general discussion and the applications of cNDIs in the field of supramolecular chemistry i.e. generation of nanostructures such as vesicles and nanotubes etc., and we also discuss advances in artificial photosynthesis. Following this is a section on their implications in the field of sensors, particularly DNA intercalation, anion sensing and NDI based pH sensors. Finally, we explore the recent development of cNDIs in organic solar cell applications. We conclude with our views on the prospects of cNDIs in future research.     

Molecular dipole engineering: new aspects of molecular dipoles in molecular architecture and their functions

The assembly of molecular architectures on the basis of molecular dipoles is proposed here to be a promising tool for construction of nanomaterials and nanodevices. Three kinds of building blocks having dipoles are discussed; helical peptides, cyclic beta-peptides, and oligo(phenylene ethynylene)s having donor and acceptor substituents. Secondary interactions involving molecular dipoles are shown to be effective to control precise molecular shapes and to assemble the building blocks in a regular manner. Furthermore, molecular dipoles can generate a strong electric field at the nanoscale, which is useful for the promotion or suppression of electron transfer processes. Organic molecules with strong dipoles will therefore be applicable to various fields, such as molecular electronics and medical chemistry, as functional nanomaterials. It is expected that the chemistry of dipolar molecules will lay a firm foundation for a new interdisciplinary field, that of "molecular dipole engineering".     

C,N-Diarylformamidines as Valuable Building Blocks in the Synthesis of Heterocyclic Compounds

Obtaining highly functionalized heterocyclic structures is an important topic of modern organic synthesis, as it reveals the possibility of constructing more complex systems and therefore, expanding the range of various drugs. Aiming at synthesizing complex molecules from simple and readily available reagents, the modification of C,N-diarylformamidines, well known in medicinal chemistry, is of great interest. This article reviews comprehensively the field of C,N-diarylformamidine chemistry and covers publications on this topic from 1999 to 2022.     

Molecular dynamics simulations applied to electric field induced second harmonic generation in dipolar chromophore solutions

Electric field induced second harmonic generation (EFISH) is an important experimental technique in extracting the first hyperpolarizability of an organic chromophore molecule. Such experiments are carried out in solutions with chromophore molecules dissolved in some common solvents. A known fact is that the first hyperpolarizabilities extracted from EFISH experiments are subject to the use of local field factors. In this work, we apply simulations to study the EFISH properties of chromophore solutions. By combining quantum chemistry calculations with the results derived from molecular dynamics simulations, we show how macroscopic EFISH properties can be modeled, using 4-(dimethylamino)-4'-nitroazobenzene dissolved in chloroform as a demonstration case. The focus of the study is on deriving accurate local field factors. We find that the local field approach applies very well to dipolar solutions, such as the one studied here, but that the local field factors derived are much smaller than the commonly used Onsager or Lorentz local field factors. Our study indicates that many of the reported first hyperpolarizabilities for dipolar molecules from EFISH experiments are most probably underestimated because the Onsager/Lorentz approach, commonly used in extracting the molecular first hyperpolarizability, neglects the effects of the shapes of dipolar chromophore molecules on the local field factors.     

化学生物学-新兴的交叉前沿学科领域

化学生物学正在成为一个重要的新兴交叉学科, 它是化学与生物学和医学等学科领域相互交叉、相互渗透的产物。化学的工具和方法, 包括合成的、结构的和分析的, 被用于研究生物和医学问题; 分子生物学的手段也被用来解决化学问题。其主要策略是采用天然的或人工设计合成的小分子作为探针, 改变生物分子的功能, 探讨各种生理和病理过程中分子识别和信号通路的分子机制。这些研究得到的知识不仅有助于阐明细胞过程的细节和调节机制、增进在分子水平上对生命的认识, 而且对于创制和发展新颖药物都具有重要意义。     

从生物有机化学到化学生物学

生物体系中的发现一直是与小分子连系在一起的.生物有机化学是生物学和有机化学相互交叉发展起来的新领域,特别是小分子与蛋白结合后引起蛋白功能变化的研究如抑制作用和活化.化学生物学和结构多样性有机合成使系统研究生物学成为可能,人工转录因子可以用作探针来发现生命过程中新的奥秘.     

磁性分子自旋态检测与调控的STM研究

单分子自旋态检测与可逆调控是目前物理、化学及信息技术等领域的研究热点．本文综述了扫描隧道显微镜在该领域的研究进展,着重论述了酞菁类磁性分子在金属单晶表面或绝缘层薄膜上磁性的检测;自旋交叉配合物分子自旋双稳态的检测与可逆调控;单分子磁体的表面制备及输运性质的检测．     

Analytical Chemistry on the Femtoliter Scale

The compartmentalization of reactions in femtoliter (fL) containers and integration of fL containers into arrays not only enhances and accelerates chemical and biochemical analysis but also leads to new scientific methods and insights. This review introduces various fL container and array formats and explores their applications for the detection and characterization of biologically relevant analytes. By loading analytes, sensing elements, or cells into fL arrays, one can perform thousands of analytical measurements in parallel. Confining single enzyme molecules in fL arrays enables one to analyze large numbers of individual enzyme molecules simultaneously in solution. New nanofabrication techniques and progressively more sensitive detection methods drive the field of fL analytical chemistry. This review focuses on the progress and challenges in the field of fL analytical chemistry with examples of both basic and applied research.