Molecular Machines Working on Surfaces and at Interfaces

In the past ten years a great variety of artificial molecular machines have been constructed, and very interesting concepts for controlling molecular‐level movements by external inputs have been developed. Most of the studies, however, have been performed in solution, where the investigated systems contain a huge number of molecules which behave independently from one another because they cannot be addressed individually. Before such systems can find applications in many fields of technology, they must be interfaced with the macroscopic world by ordering them in some way so that they can behave coherently and can be addressed in space. The problem of obtaining ordered arrays of molecular machines can be addressed by a variety of techniques, which include deposition on surfaces, incorporation into polymers, organization at interfaces, and immobilization in membranes or porous materials. In the last few years, the development of scanning‐probe techniques has also enabled direct observation and manipulation of single molecular‐machine molecules on surfaces. Techniques of this kind have opened novel routes to the study of molecular machines, and have also contributed to better understanding the differences between movement at the macroscopic and molecular levels. This paper reviews some recent achievements in the field of molecular machines working on surfaces and at interfaces, as single molecules or ordered arrays. Hybrid natural–artificial machines are also discussed, and the working mechanism of some natural machines is illustrated for the purpose of comparison.     

DNA‐Nanotechnologie

For the past two decades the extraordinary molecular recognition properties of DNA molecules have been used for the creation of artificial molecular structures. Following the initial production of simple molecular objects and lattices, with the recent invention of the DNA origami technique the complexity of these structures has considerably increased. Now the construction of almost arbitrary molecular nanostructures from DNA in two and even three dimensions is feasible – and first concrete applications in biomedicine and nanotechnology are in reach. In addition to static molecular structures, also dynamical systems such as molecular machines, molecular motors, and molecular computers can be realized. The combination of these functions within integrated systems currently leads to the development of first molecular “robots” and assembly lines for nanotechnology.     

Artificial nanomachines based on interlocked molecular species: recent advances

The bottom-up construction and operation of nanoscale machines and motors, that is, supramolecular systems wherein the molecular components can be set in motion in a controlled manner for ultimately accomplishing a function, is a topic of great interest in nanoscience and a fascinating challenge of nanotechnology. The field of artificial molecular machines and motors is growing at an astonishing rate and is attracting a great deal of interest. Research in the last decade has shown that species made of interlocked molecular components like rotaxanes, catenanes and related systems are most attractive candidates. In recent times, the evolution of the structural and functional design of such systems has led to the construction and operation of complex molecular machines that, in some cases, are able to do specific tasks. This tutorial review is intended to discuss the design principles for nanomachines based on interlocked molecules, and to provide a timely overview on representative prototype systems.     

Development of photoresponsive supramolecular machines inspired by biological molecular systems

In the growing research area on molecular machinery, light is one of the attractive and useful stimuli source to operate synthetic molecular machines, since light allows selective operation of photoresponsive moieties without additives. We have proposed a new approach to design of photoresponsive molecular machines by interlocking mechanical motions between photoresponsive and movable units through covalent and non-covalent bonds. This approach is inspired by biological molecular machines consisting of multiple protein subunits, and potentially useful for construction of giant mechanical systems. In this review, we will introduce our concepts of the molecular design with several successful examples as well as their applications for controlling chemical events, and also glance at a semi-biological molecular machine controllable by light, which reveals a potential of biological systems for development of elaborate molecular devices.     

Molecular machines as a driving force of progress in modern post-industrial society

The review considers main advances achieved in recent years in a fairly old and simultaneously modern field of research, controlled motion at the molecular level and its practical transformation in the form of synthetic molecular machines and devices. The basic principles of the design and controlled linear and rotational motion in such molecular systems and various useful functions potentially inherent in synthetic molecular machines have been discussed. Examples of already implemented molecular rotors, shuttles, switches, transporters, and muscles are given. Finally, immediate and more distant prospects for the development of this fascinating and very important field of nanotechnology are presented.     

Ruthenium-based light-driven molecular machine prototypes: synthesis and properties

In the past years, many dynamic systems often referred to as "molecular machines" have been elaborated. They are generally set in motion by external stimuli like chemical, electrochemical, or photochemical reactions. Light irradiation seems particularly promising since the input signal can be switched on and off fast and readily on a very small place. In this tutorial review, we will highlight recent advances in the design and synthesis of various ruthenium(II) complexed rotaxanes, catenanes, scorpionates or macrocycles. In these compounds, one part of the system is set in motion by photochemically expelling a given chelate. We will discuss the behaviour of various topologically non-trivial systems like catenanes and rotaxanes as well as acyclic and macrocyclic models.     

Liquid interfacial nanoarchitectonics: Molecular machines,organic semiconductors,nanocarbons, stem cells,and others

The concept of nanoarchitectonics has been proposed as an extensional development of nanotechnology through fusions with material science and the other fields. In nanoarchitectonics, nano-units of atoms, molecules, and nanomaterials are architected into construction of functional material systems. In order to assemble intended structures or hierarchical structures from nano-units, it is more useful to confine nano-units at the interface. In addition, nanoarchitectonics is expected to output functions by harmonizing many units in dynamic environments. However, the liquid interfaces still have lots of unexplored matters in nanoscale because supports by advanced apparatus and techniques in nanotechnology are not always available. Specifically, this review paper summarizes examples of research on molecular manipulation, molecular arrangement and assembly, materials synthesis, and life manipulation at the liquid interface. These examples demonstrate that the liquid interface enables the control of dynamic functions of various size regions, from molecular-level phenomena such as the control of molecular machines to techniques of living creature size such as the control of stem cell differentiation. Liquid interfaces are very useful environments for controlling dynamic functions for a wide range of targets and would have tremendous potential in terms of functional exploration. The great potential of nanoarchitectonics at the liquid interface and the challenges to be solved in the future are also discussed.     

Artificial Molecular Machines

The miniaturization of components used in the construction of working devices is being pursued currently by the large-downward (top-down) fabrication. This approach, however, which obliges solid-state physicists and electronic engineers to manipulate progressively smaller and smaller pieces of matter, has its intrinsic limitations. An alternative approach is a small-upward (bottom-up) one, starting from the smallest compositions of matter that have distinct shapes and unique properties-namely molecules. In the context of this particular challenge, chemists have been extending the concept of a macroscopic machine to the molecular level. A molecular-level machine can be defined as an assembly of a distinct number of molecular components that are designed to perform machinelike movements (output) as a result of an appropriate external stimulation (input). In common with their macroscopic counterparts, a molecular machine is characterized by 1) the kind of energy input supplied to make it work, 2) the nature of the movements of its component parts, 3) the way in which its operation can be monitored and controlled, 4) the ability to make it repeat its operation in a cyclic fashion, 5) the timescale needed to complete a full cycle of movements, and 6) the purpose of its operation. Undoubtedly, the best energy inputs to make molecular machines work are photons or electrons. Indeed, with appropriately chosen photochemically and electrochemically driven reactions, it is possible to design and synthesize molecular machines that do work. Moreover, the dramatic increase in our fundamental understanding of self-assembly and self-organizational processes in chemical synthesis has aided and abetted the construction of artificial molecular machines through the development of new methods of noncovalent synthesis and the emergence of supramolecular assistance to covalent synthesis as a uniquely powerful synthetic tool. The aim of this review is to present a unified view of the field of molecular machines by focusing on past achievements, present limitations, and future perspectives. After analyzing a few important examples of natural molecular machines, the most significant developments in the field of artificial molecular machines are highlighted. The systems reviewed include 1) chemical rotors, 2) photochemically and electrochemically induced molecular (conformational) rearrangements, and 3) chemically, photochemically, and electrochemically controllable (co-conformational) motions in interlocked molecules (catenanes and rotaxanes), as well as in coordination and supramolecular complexes, including pseudorotaxanes. Artificial molecular machines based on biomolecules and interfacing artificial molecular machines with surfaces and solid supports are amongst some of the cutting-edge topics featured in this review. The extension of the concept of a machine to the molecular level is of interest not only for the sake of basic research, but also for the growth of nanoscience and the subsequent development of nanotechnology.     

A Focus on Triazolium as a Multipurpose Molecular Station for pH-Sensitive Interlocked Crown-Ether-Based Molecular Machines

The control of motion of one element with respect to others in an interlocked architecture allows for different co-conformational states of a molecule. This can result in variations of physical or chemical properties. The increase of knowledge in the field of molecular interactions led to the design, the synthesis, and the study of various systems of molecular machinery in a wide range of interlocked architectures. In this field, the discovery of new molecular stations for macrocycles is an attractive way to conceive original molecular machines. In the very recent past, the triazolium moiety proved to interact with crown ethers in interlocked molecules, so that it could be used as an ideal molecular station. It also served as a molecular barrier in order to lock interlaced structures or to compartmentalize interlocked molecular machines. This review describes the recently reported examples of pH-sensitive triazolium-containing molecular machines and their peculiar features.     

New Concepts in Tetrathiafulvalene Chemistry

Tetrathiafulvalene (TTF) and its derivatives were originally prepared as strong electron-donor molecules for the development of electrically conducting materials. This Review emphasizes how TTF and its derivatives offer new and in some cases little-exploited possibilities at the molecular to the supramolecular levels, as well as in macromolecular aspects. TTF is a well-established molecule whose interest goes beyond the field of materials chemistry to be considered an important building block in supramolecular chemistry, crystal engineering, and in systems able to operate as machines. At the molecular level, TTF is a readily available molecule which displays a strong electron-donor ability. However, its use as a catalyst for radical-polar crossover reactions, thus mimicking samarium iodide chemistry, has only recently been addressed. Important goals have been achieved in the use of TTF at the macromolecular level where TTF-containing oligomers, polymers, and dendrimers have allowed the preparation of new materials that integrate the unique properties of TTF with the processability and stability that macromolecules display. The TTF molecule has also been successfully used in the construction of redox-active supramolecular systems. Thus, chemical sensors and redox-switchable ligands have been prepared from TTF while molecular shuttles and molecular switches have been prepared from TTF-containing rotaxanes and catenanes. A large synthetic effort has been devoted to the preparation of the so-called organic ferromagnets, many of which are derived from TTF. The main task in these systems is the introduction of ferromagnetic coupling between the conduction electrons and localized electrons. TTF has also played a prominent role in molecular electronics where TTF-containing D-sigma-A molecules have allowed the preparation of the first confirmed unimolecular rectifier. Recently, it has been confirmed that TTF can display efficient nonlinear optic (NLO) responses in the second and third harmonic generation as well as a good thermal stability. These findings can be combined with the redox ability of TTF as an external stimuli to provide a promising strategy for the molecular engineering of switchable NLO materials. Fullerenes endowed with TTF exhibit outstanding photophysical properties leading to charge-separated (CS) states that show remarkable lifetimes.     

Abiotic Chemical Fuels for the Operation of Molecular Machines

Natural molecular machines require a continuous fuel supply to perform motions and/or remain in a functional state. Consequently, the aim of developing artificial devices and materials with life‐type properties has motivated a growing interest in abiotic chemical fuels and in their supply modalities. Many artificial molecular machines have been developed in which the sequential addition of several chemical reagents allows the machine to perform complete cycles of motion. Only recently, examples of molecular machines whose cycles of motion are triggered by a single pulse of fuel have been reported. The latter systems are the object of this Minireview where the abiotic chemical fuels used so far to trigger the complete cycles of motion of molecular machines are described, with particular emphasis on the operation mechanism of the machine/fuel systems.     

分子组装机器：纳米工厂

Molecular machines have attracted significant attentions as one of the most promising aspects of chemistry for their potential applications ever since receiving the 2016 Nobel Prize in Chemistry. The molecular assembler, also called the nanofactory, is a novel type of molecular machines that are capable of controlling the chemical reactions precisely at the microscopic level. As an analog to the macroscopic factories, nanofactories are comprised of a "transporting" part, the molecular walkers, and an "assembling" part, the molecular robotic arms. In this review, we provide a brief introduction of the research progress in recent years together with analysis on the principles of designing, constructing and operating molecular assemblers. We also summarize the prospects and challenges in the research area of molecular assemblers.     

分子机器的研究进展

结合分子机器的基本概念、合成方法、驱动方式以及研究的意义, 综述了近几年分子机器的研究进展, 探讨了下一步研究的发展方向.     

Crystalline molecular machines: function, phase order, dimensionality, and composition

The design of molecular machines is stimulated by the possibility of developing new materials with complex physicochemical and mechanical properties that are responsive to external stimuli. Condensed-phase matter with anisotropic molecular order and controlled dynamics, also defined as amphidynamic crystals, offers a promising platform for the design of bulk materials capable of performing such functions. Recent studies have shown that it is possible to engineer molecular crystals and extended solids with Brownian rotation about specific axes that can be interfaced with external fields, which may ultimately be used to design novel optoelectronic materials. Structure/function relationships of amphidynamic materials have been characterized, establishing the blueprints to further engineer sophisticated function. However, the synthesis of amphidynamic molecular machines composed of multiple "parts" is essential to realize increasingly complex behavior. Recent progress in amphidynamic multicomponent systems suggests that sophisticated functions similar to those of simple biomolecular machines may eventually be within reach.     

Functional nanomachines: Recent advances in synthetic molecular machinery

A mini-review: As the top-down approach for miniaturisation of technology reaches its inherent limitations, robust strategies to build nanoscale machinery components, which have the ability to convert an input energy into motion, from the molecular level up, become increasingly important. Nature is certainly the most proficient in the control of molecular level motion; nevertheless, many successes have been enjoyed in the pursuit of mimicking key aspects of nature’s molecular machines, including two state switches, ion pumps, unidirectional rotary motors and molecular robots that can move molecular cargo. This mini-review outlines of some of the most impressive recent examples towards this end.     

The concept of molecular machinery is useful for design of stimuli-responsive gene delivery systems in the mammalian cell

Since the first generation of molecular machines including photoresponsive crown ethers and its analogues was reported by Shinkai et al., a huge number of molecular machines exhibiting dynamic chemical and physical functions have been designed and developed. On the other hand, non-viral vectors are desired to possess conflicting properties to associate with DNA until reaching the nucleus as their final destination and dissociate from DNA there. In other words, non-viral vectors should work as a sort of molecular machinery. To overcome this dilemma, recently, much attention is focused on the development of the intelligent vectors, also called as ‘stimuli responsive vectors’ working as molecular machines. In this review, stimulus responsive gene delivery systems in which some structural factors and/or physiological properties are regulated in response to extracellular signals such as redox, pH, ultrasound, light, temperature, etc. are introduced as a new generation of non-viral vectors. These extracellular signals such as ultrasound, light, and temperature can be potent stimuli capable of site-, timing-, and duration-specific gene expression. This is a paper selected for “HGCS Japan Award of Excellence 2006”.     

Development of a parallel molecular dynamics code on SIMD computers: Algorithm for use of pair list criterion

In recent years several implementations of molecular dynamics (MD) codes have been reported on multiple instruction multiple data (MIMD) machines. However, very few implementations of MD codes on single instruction multiple data (SIMD) machines have been reported. The difficulty in using pair lists of nonbonded interactions is the major problem with MD codes for SIMD machines, such that, generally, the full connectivity computation has been used. We present an algorithm, the global cut-off algorithm (GCA), which permits the use of pair lists on SIMD machines. GCA is based on a probabilistic approach and requires the cut-off condition to be simultaneously verified on all nodes of the machine. The MD code used was taken from the GROMOS package; only the routines involved in the pair lists and in the computation of nonbonded interactions were rewritten for a parallel architecture. The remaining calculations were performed on the host computer. The algorithm has been tested on Quadrics computers for configurations of 32, 128, and 512 processors and for systems of 4000, 8000, 15,000, and 30,000 particles. Quadrics was developed by Istituto Nazionale di Fisica Nucleare (INFN) and marketed by Alenia Spazio. © 1998 John Wiley & Sons, Inc. J Comput Chem 19: 685–694, 1998     

Nano Trek Beyond: Driving Nanocars/Molecular Machines at Interfaces

In 2016, the Nobel Prize in Chemistry was awarded for pioneering work on molecular machines. Half a year later, in Toulouse, the first molecular car race, a “nanocar race”, was held by using the tip of a scanning tunneling microscope as an electrical remote control. In this Focus Review, we discuss the current state‐of‐the‐art in research on molecular machines at interfaces. In the first section, we briefly explain the science behind the nanocar race, followed by a selection of recent examples of controlling molecules on surfaces. Finally, motion synchronization and the functions of molecular machines at liquid interfaces are discussed. This new concept of molecular tuning at interfaces is also introduced as a method for the continuous modification and optimization of molecular structure for target functions.     

Kinetic Asymmetry and Directionality of Nonequilibrium Molecular Systems

Scientists have long been fascinated by the biomolecular machines in living systems that process energy and information to sustain life. The first synthetic molecular rotor capable of performing repeated 360° rotations due to a combination of photo- and thermally activated processes was reported in 1999. The progress in designing different molecular machines in the intervening years has been remarkable, with several outstanding examples appearing in the last few years. Despite the synthetic accomplishments, there remains confusion regarding the fundamental design principles by which the motions of molecules can be controlled, with significant intellectual tension between mechanical and chemical ways of thinking about and describing molecular machines. A thermodynamically consistent analysis of the kinetics of several molecular rotors and pumps shows that while light driven rotors operate by a power-stroke mechanism, kinetic asymmetry—the relative heights of energy barriers—is the sole determinant of the directionality of catalysis driven machines. Power-strokes—the relative depths of energy wells—play no role whatsoever in determining the sign of the directionality. These results, elaborated using trajectory thermodynamics and the nonequilibrium pump equality, show that kinetic asymmetry governs the response of many non-equilibrium chemical phenomena.