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Borsley S, Leigh DA, Roberts BMW. Molecular Ratchets and Kinetic Asymmetry: Giving Chemistry Direction. Angew Chem Int Ed Engl 2024; 63:e202400495. [PMID: 38568047 DOI: 10.1002/anie.202400495] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Indexed: 05/03/2024]
Abstract
Over the last two decades ratchet mechanisms have transformed the understanding and design of stochastic molecular systems-biological, chemical and physical-in a move away from the mechanical macroscopic analogies that dominated thinking regarding molecular dynamics in the 1990s and early 2000s (e.g. pistons, springs, etc), to the more scale-relevant concepts that underpin out-of-equilibrium research in the molecular sciences today. Ratcheting has established molecular nanotechnology as a research frontier for energy transduction and metabolism, and has enabled the reverse engineering of biomolecular machinery, delivering insights into how molecules 'walk' and track-based synthesisers operate, how the acceleration of chemical reactions enables energy to be transduced by catalysts (both motor proteins and synthetic catalysts), and how dynamic systems can be driven away from equilibrium through catalysis. The recognition of molecular ratchet mechanisms in biology, and their invention in synthetic systems, is proving significant in areas as diverse as supramolecular chemistry, systems chemistry, dynamic covalent chemistry, DNA nanotechnology, polymer and materials science, molecular biology, heterogeneous catalysis, endergonic synthesis, the origin of life, and many other branches of chemical science. Put simply, ratchet mechanisms give chemistry direction. Kinetic asymmetry, the key feature of ratcheting, is the dynamic counterpart of structural asymmetry (i.e. chirality). Given the ubiquity of ratchet mechanisms in endergonic chemical processes in biology, and their significance for behaviour and function from systems to synthesis, it is surely just as fundamentally important. This Review charts the recognition, invention and development of molecular ratchets, focussing particularly on the role for which they were originally envisaged in chemistry, as design elements for molecular machinery. Different kinetically asymmetric systems are compared, and the consequences of their dynamic behaviour discussed. These archetypal examples demonstrate how chemical systems can be driven inexorably away from equilibrium, rather than relax towards it.
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Affiliation(s)
- Stefan Borsley
- Department of Chemistry, The University of Manchester, Oxford Road, M13 9PL, Manchester, United Kingdom
| | - David A Leigh
- Department of Chemistry, The University of Manchester, Oxford Road, M13 9PL, Manchester, United Kingdom
| | - Benjamin M W Roberts
- Department of Chemistry, The University of Manchester, Oxford Road, M13 9PL, Manchester, United Kingdom
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2
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Peelikuburage BGD, Martens WN, Waclawik ER. Light switching for product selectivity control in photocatalysis. NANOSCALE 2024; 16:10168-10207. [PMID: 38722105 DOI: 10.1039/d4nr00885e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2024]
Abstract
Artificial switchable catalysis is a new, rapidly expanding field that offers great potential advantages for both homogeneous and heterogeneous catalytic systems. Light irradiation is widely accepted as the best stimulus to artificial switchable chemical systems. In recent years, tremendous progress has been made in the synthesis and application of photo-switchable catalysts that can control when and where bond formation and dissociation take place in reactant molecules. Photo-switchable catalysis is a niche area in current catalysis, on which systematic analysis and reviews are still lacking in the scientific literature, yet it offers many intriguing and versatile applications, particularly in organic synthesis. This review aims to highlight the recent advances in photo-switchable catalyst systems that can result in two different chemical product outcomes and thus achieve a degree of control over organic synthetic reactions. Furthermore, this review evaluates different approaches that have been employed to achieve dynamic control over both the catalytic function and the selectivity of several different types of synthesis reactions, along with the remaining challenges and potential opportunities. Owing to the great diversity of the types of reactions and conditions adopted, a quantitative comparison of efficiencies between considered systems is not the focus of this review, instead the review showcases how insights from successful adopted strategies can help better harness and channel the power of photoswitchability in this new and promising area of catalysis research.
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Affiliation(s)
- Bayan G D Peelikuburage
- Centre of Materials Science & School of Chemistry and Physics, Faculty of Science, Queensland University of Technology (QUT), 2 George Street, Brisbane, Queensland 4000, Australia.
| | - Wayde N Martens
- Centre of Materials Science & School of Chemistry and Physics, Faculty of Science, Queensland University of Technology (QUT), 2 George Street, Brisbane, Queensland 4000, Australia.
| | - Eric R Waclawik
- Centre of Materials Science & School of Chemistry and Physics, Faculty of Science, Queensland University of Technology (QUT), 2 George Street, Brisbane, Queensland 4000, Australia.
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3
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Olszewska K, Mizera A, Ławniczak P, Kamińska A, Santillan R, Morales-Chamorro M, Ochoa ME, Farfán N, Łapiński A, Górecki M, Jastrzebska I, Runka T. Molecular Dynamics of Steroidal Rotors Probed by Theoretical, Spectroscopic and Dielectric Methods. Chemistry 2024; 30:e202303933. [PMID: 38311598 DOI: 10.1002/chem.202303933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2023] [Revised: 01/31/2024] [Accepted: 02/01/2024] [Indexed: 02/06/2024]
Abstract
Our study focuses on molecular rotors with fast-moving rotators and their potential applications in the development of new amphidynamic crystals. Steroidal molecular rotors with a dipolar fluorine-substituted phenyl group as the rotator were synthesized and characterized. Three different rotors were investigated with varying numbers of fluorine atoms. A comprehensive analysis was performed using vibrational spectroscopy (Raman, FT-IR), electronic circular dichroism (ECD), and dielectric response to understand the behavior of the investigated model rotors. The results were supported by theoretical calculations using Density Functional Theory (DFT) methods. The angle-dependent polarized Raman spectra confirmed the crystallinity of the samples. Nearly frequency and temperature-independent permittivity suggest low-frequency librational motion of stators. An in-depth analysis of ECD spectra revealed high conformational flexibility in solution, resulting in low ECD effects, while in the solid-state with restricted rotation, significant ECD effects were observed. These findings shed light on the conformational behavior and potential applications of the studied steroidal molecular rotors.
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Affiliation(s)
- Karolina Olszewska
- Faculty of Materials Engineering and Technical Physics, Institute of Materials Research and Quantum Engineering, Poznan University of Technology Piotrowo, 3, 60-965, Poznań, Poland
| | - Adam Mizera
- Institute of Molecular Physics, Polish Academy of Sciences, Smoluchowskiego 17, 60-179, Poznań, Poland
| | - Paweł Ławniczak
- Institute of Molecular Physics, Polish Academy of Sciences, Smoluchowskiego 17, 60-179, Poznań, Poland
| | - Anna Kamińska
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44/52, 01-224, Warsaw, Poland
| | - Rosa Santillan
- Departamento de Química Centro de Investigación y de Estudios Avanzados del IPN, México D.F. Apdo. Postal 14-740, 07000, México
| | - Maricela Morales-Chamorro
- Departamento de Química Centro de Investigación y de Estudios Avanzados del IPN, México D.F. Apdo. Postal 14-740, 07000, México
| | - Ma Eugenia Ochoa
- Departamento de Química Centro de Investigación y de Estudios Avanzados del IPN, México D.F. Apdo. Postal 14-740, 07000, México
| | - Norberto Farfán
- Facultad de Química, Departamento de Química Orgánica, Universidad Nacional Autónoma de México, 04510, Ciudad de México, México
| | - Andrzej Łapiński
- Institute of Molecular Physics, Polish Academy of Sciences, Smoluchowskiego 17, 60-179, Poznań, Poland
| | - Marcin Górecki
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44/52, 01-224, Warsaw, Poland
| | - Izabella Jastrzebska
- Institute of Chemistry, University of Białystok, Ciołkowskiego 1 K, 15-254, Białystok, Poland
| | - Tomasz Runka
- Faculty of Materials Engineering and Technical Physics, Institute of Materials Research and Quantum Engineering, Poznan University of Technology Piotrowo, 3, 60-965, Poznań, Poland
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4
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Ghazal SA, Tabbalat SW, Gándara F, Al-Ghourani A, Abusulieh SM, Abdellatief M, Sunoqrot S, Cordova KE. A Hydrogen-Bonded Organic Framework Equipped with a Molecular Nanovalve. ACS APPLIED MATERIALS & INTERFACES 2024; 16:16522-16531. [PMID: 38529914 DOI: 10.1021/acsami.4c01171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/27/2024]
Abstract
The concept of a molecular nanovalve is applied to a synthesized biocompatible hydrogen-bonded organic framework (HOF), termed RSS-140, to load, trap, and subsequently release an antioxidant on command. Specifically, we exploit the pore windows of RSS-140 (i.e., β-CD cavities) to first load and trap the antioxidant, Trolox, within the internal pores of the HOF (Trolox⊂RSS-140) and, to prevent it from leaching, utilize supramolecular chemistry to complex azobenzene (Azo) with β-CD (Trolox⊂Azo@RSS-140). The molecular nanovalve is fully realized upon exposing Trolox⊂Azo@RSS-140 to UV light with a specific wavelength, which induces Azo isomerization, Azo decomplexation from β-CD, and subsequent release of Trolox from the pores of RSS-140. The biocompatibility and nontoxicity of Trolox⊂Azo@RSS-140, together with the absolute control over the nanovalve opening, were established to yield a system that safely and slowly releases Trolox for longer-lasting antioxidant efficacy. As the field of supramolecular chemistry is rich with similar systems and many such systems can be used as building blocks to construct HOFs or other extended framework materials, we envision the molecular nanovalve concept to be applied widely for controllably delivering molecular cargo for diverse applications.
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Affiliation(s)
- Sara A Ghazal
- Integrated Materials Systems Research Unit, Advanced Research Centre, Royal Scientific Society, Amman 11941, Jordan
| | - Sarah W Tabbalat
- Integrated Materials Systems Research Unit, Advanced Research Centre, Royal Scientific Society, Amman 11941, Jordan
| | - Felipe Gándara
- Materials Science Institute of Madrid, Consejo Superior de Investigaciones Cientificas, Madrid 28049, Spain
| | - Ala'a Al-Ghourani
- Integrated Materials Systems Research Unit, Advanced Research Centre, Royal Scientific Society, Amman 11941, Jordan
| | - Samah M Abusulieh
- Faculty of Pharmacy, Al-Zaytoonah University of Jordan, Amman 11733, Jordan
| | - Mahmoud Abdellatief
- Synchrotron-light for Experimental Science and Applications in the Middle East (SESAME), Allan 19252, Jordan
| | - Suhair Sunoqrot
- Faculty of Pharmacy, Al-Zaytoonah University of Jordan, Amman 11733, Jordan
| | - Kyle E Cordova
- Integrated Materials Systems Research Unit, Advanced Research Centre, Royal Scientific Society, Amman 11941, Jordan
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McCarthy DR, Xu K, Schenkelberg ME, Balegamire NAN, Liang H, Bellino SA, Li J, Schneebeli ST. Kinetically controlled synthesis of rotaxane geometric isomers. Chem Sci 2024; 15:4860-4870. [PMID: 38550687 PMCID: PMC10967009 DOI: 10.1039/d3sc04412b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Accepted: 01/24/2024] [Indexed: 04/30/2024] Open
Abstract
Geometric isomerism in mechanically interlocked systems-which arises when the axle of a mechanically interlocked molecule is oriented, and the macrocyclic component is facially dissymmetric-can provide enhanced functionality for directional transport and polymerization catalysis. We now introduce a kinetically controlled strategy to control geometric isomerism in [2]rotaxanes. Our synthesis provides the major geometric isomer with high selectivity, broadening synthetic access to such interlocked structures. Starting from a readily accessible [2]rotaxane with a symmetrical axle, one of the two stoppers is activated selectively for stopper exchange by the substituents on the ring component. High selectivities are achieved in these reactions, based on coupling the selective formation reactions leading to the major products with inversely selective depletion reactions for the minor products. Specifically, in our reaction system, the desired (major) product forms faster in the first step, while the undesired (minor) product subsequently reacts away faster in the second step. Quantitative 1H NMR data, fit to a detailed kinetic model, demonstrates that this effect (which is conceptually closely related to minor enantiomer recycling and related processes) can significantly improve the intrinsic selectivity of the reactions. Our results serve as proof of principle for how multiple selective reaction steps can work together to enhance the stereoselectivity of synthetic processes forming complex mechanically interlocked molecules.
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Affiliation(s)
- Dillon R McCarthy
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
| | - Ke Xu
- Departments of Industrial & Molecular Pharmaceutics, Chemistry, and Medicinal Chemistry & Molecular Pharmacology, Purdue University West Lafayette IN 47907 USA
| | - Mica E Schenkelberg
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
- Departments of Industrial & Molecular Pharmaceutics, Chemistry, and Medicinal Chemistry & Molecular Pharmacology, Purdue University West Lafayette IN 47907 USA
| | - Nils A N Balegamire
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
- Departments of Industrial & Molecular Pharmaceutics, Chemistry, and Medicinal Chemistry & Molecular Pharmacology, Purdue University West Lafayette IN 47907 USA
| | - Huiming Liang
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
| | - Shea A Bellino
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
| | - Jianing Li
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
- Departments of Industrial & Molecular Pharmaceutics, Chemistry, and Medicinal Chemistry & Molecular Pharmacology, Purdue University West Lafayette IN 47907 USA
| | - Severin T Schneebeli
- Departments of Chemistry, Pathology, and Materials Science Program, University of Vermont Burlington VT 05405 USA
- Departments of Industrial & Molecular Pharmaceutics, Chemistry, and Medicinal Chemistry & Molecular Pharmacology, Purdue University West Lafayette IN 47907 USA
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6
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Song Y, Kim JS. Structure and dynamics of double-stranded DNA rotaxanes. NANOSCALE 2024; 16:4317-4324. [PMID: 38353661 DOI: 10.1039/d3nr05846h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/23/2024]
Abstract
A DNA rotaxane, with its unique mechanically interlocked architecture consisting of a circular DNA molecule threaded onto a linear DNA axle, holds promise as a fundamental component for nanoscale functional devices. Nevertheless, its structural and dynamic behaviors, essential for advancing molecular machinery, remain largely unexplored. Using extensive all-atom molecular dynamics simulations, we investigated the behaviors of double-stranded DNA (dsDNA) rotaxanes, concentrating on the effects of shape distortion induced by torsional stress in small circular dsDNA containing 70-90 base pairs. We analyzed structural characteristics, including shape, intermolecular distances, and tilt angles, while also exploring dynamic properties such as translational diffusion and toroidal rotation. Our results indicate that shape distortion brings the circular and linear dsDNA components into closer proximity and causes a slight increase in translational diffusion yet a minor decrease in toroidal rotation. Nevertheless, there is no apparent evidence of coupling between translation and rotation. Overall, the insights from this study indicate that such shape distortion does not significantly alter their structure and dynamics. This finding provides flexibility for the design of DNA rotaxanes in nanoscale applications.
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Affiliation(s)
- Yeonho Song
- Department of Chemistry and Nanoscience, Ewha Womans University, Seoul 03760, Republic of Korea.
| | - Jun Soo Kim
- Department of Chemistry and Nanoscience, Ewha Womans University, Seoul 03760, Republic of Korea.
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7
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Bąk KM, Trzaskowski B, Chmielewski MJ. Anion-templated synthesis of a switchable fluorescent [2]catenane with sulfate sensing capability. Chem Sci 2024; 15:1796-1809. [PMID: 38303949 PMCID: PMC10829038 DOI: 10.1039/d3sc05086f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Accepted: 12/16/2023] [Indexed: 02/03/2024] Open
Abstract
Anion templation strategies have facilitated the synthesis of various catenane and rotaxane hosts capable of strong and selective binding of anions in competitive solvents. However, this approach has primarily relied on positively charged precursors, limiting the structural diversity and the range of potential applications of the anion-templated mechanically interlocked molecules. Here we demonstrate the synthesis of a rare electroneutral [2]catenane using a powerful, doubly charged sulfate template and a complementary diamidocarbazole-based hydrogen bonding precursor. Owing to the unique three-dimensional hydrogen bonding cavity and the embedded carbazole fluorophores, the resulting catenane receptor functions as a sensitive fluorescent turn-ON sensor for the highly hydrophilic sulfate, even in the presence of a large excess of water. Importantly, the [2]catenane exhibits enhanced binding affinity and selectivity for sulfate over its parent macrocycle and other acyclic diamidocarbazole-based receptors. We demonstrate also, for the first time, that the co-conformation of the catenane may be controlled by reversible acid/base induced protonation and deprotonation of the anionic template, SO42-. This approach pioneers a new strategy to induce molecular motion of interlocked components using switchable anionic templates.
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Affiliation(s)
- Krzysztof M Bąk
- Faculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw Żwirki i Wigury 101 02-089 Warsaw Poland
| | - Bartosz Trzaskowski
- Centre of New Technologies, University of Warsaw Banacha 2c 02-097 Warsaw Poland
| | - Michał J Chmielewski
- Faculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw Żwirki i Wigury 101 02-089 Warsaw Poland
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8
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Becharguia N, Wasielewski E, Abidi R, Nierengarten I, Nierengarten JF. Stepwise Functionalization of a Pillar[5]arene-Containing [2]Rotaxane with Pentafluorophenyl Ester Stoppers. Chemistry 2024; 30:e202303501. [PMID: 37983752 DOI: 10.1002/chem.202303501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 11/18/2023] [Accepted: 11/20/2023] [Indexed: 11/22/2023]
Abstract
Detailed investigations into the stepwise bis-functionalization of a pillar[5]arene-containing rotaxane building block have been carried out. Upon a first stopper exchange, the pillar[5]arene moiety of the mono-acylated product is preferentially located close to its reactive pentafluorophenyl ester stopper, thus limiting the accessibility to the reactive carbonyl group by the nucleophilic reagents. Selective mono-functionalization is thus very efficient. Introduction of a second stopper is then possible to generate dissymmetrical rotaxanes with different amide stoppers. Moreover, when dethreading is possible upon the second acylation, the pillar[5]arene plays the role of a protecting group allowing the synthesis of dissymmetrical axles that are particularly difficult to prepare under statistical conditions. Finally, detailed conformation analysis of the rotaxanes revealed that the position of the pillar[5]arene moiety on its axle subunit is mainly governed by polar interactions in nonpolar organic solvents, whereas solvophobic effects play a major role in polar solvents.
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Affiliation(s)
- Nihed Becharguia
- Laboratoire de Chimie des Matériaux Moléculaires, Université de Strasbourg et CNRS (UMR 7042 LIMA), Ecole Européenne de Chimie, Polymères et Matériaux, 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
- Laboratoire d'Applications de la Chimie aux Ressources et, Substances Naturelles et l'Environnement, Faculté des Sciences de Bizerte, Université de Carthage, 7021 Zarzouna, Bizerte, Tunisia
| | - Emeric Wasielewski
- Plateforme RMN Cronenbourg, Université de Strasbourg et CNRS (UMR 7042 LIMA), Ecole Européenne de Chimie, Polymères et Matériaux, 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
| | - Rym Abidi
- Laboratoire d'Applications de la Chimie aux Ressources et, Substances Naturelles et l'Environnement, Faculté des Sciences de Bizerte, Université de Carthage, 7021 Zarzouna, Bizerte, Tunisia
| | - Iwona Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires, Université de Strasbourg et CNRS (UMR 7042 LIMA), Ecole Européenne de Chimie, Polymères et Matériaux, 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
| | - Jean-François Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires, Université de Strasbourg et CNRS (UMR 7042 LIMA), Ecole Européenne de Chimie, Polymères et Matériaux, 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
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Guchhait C, Suriyaa V, Sahu N, Sarkar SD, Adhikari B. Ferrocene: an exotic building block for supramolecular assemblies. Chem Commun (Camb) 2023; 59:14482-14496. [PMID: 37997157 DOI: 10.1039/d3cc03659f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2023]
Abstract
Ferrocene (Fc), a classical organometallic complex, has found potential applications in ligand design, catalysis, and analytical, biological, medicinal and materials chemistry. In recent years, the use of Fc as a building block in supramolecular chemistry has emerged. The molecular shape, size, and hydrophobicity of Fc make it an ideal guest for a variety of macrocyclic host molecules to form stable host-guest complexes. The vertical distance (3.3 Å) between two cyclopentadienyl rings and molecular "ball bearing" property in Fc support the formation of intramolecular π-π stacking, H-bonding and metallophilic interactions between two appropriate substituents in 1,n'-disubstituted ferrocenes. Along with these molecular features, the rigidity along with rotational flexibility, redox reversibility and oxidation-triggered tunable hydrophobicity of Fc have led to its use as an exotic building block for the development of a wide range of supramolecular assemblies such as smart molecular receptors, intricate metal-organic assemblies, supramolecular polymers, and gels including out-of-equilibrium assemblies and metal nanoparticle assemblies. This review highlights the concepts behind the design and development of these assemblies, where the Fc unit has a direct and defined role in their formation and function. The use of Fc in supramolecular assembly is still a relatively young field and set to be the subject of increasing research interest towards the development of fascinating supramolecular structures with tailored properties and programmable functions towards applications in materials and biological sciences.
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Affiliation(s)
- Chandrakanta Guchhait
- Department of Chemistry, National Institute of Technology Rourkela, Rourkela, Odisha 769008, India.
| | - Vembanan Suriyaa
- Department of Chemistry, National Institute of Technology Rourkela, Rourkela, Odisha 769008, India.
| | - Nihar Sahu
- Department of Chemistry, National Institute of Technology Rourkela, Rourkela, Odisha 769008, India.
| | - Sovik Dey Sarkar
- Department of Chemistry, National Institute of Technology Rourkela, Rourkela, Odisha 769008, India.
| | - Bimalendu Adhikari
- Department of Chemistry, National Institute of Technology Rourkela, Rourkela, Odisha 769008, India.
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Tsai CY, Cheng HT, Chiu SH. Improbable Rotaxanes Constructed From Surrogate Malonate Rotaxanes as Encircled Methylene Synthons. Angew Chem Int Ed Engl 2023; 62:e202308974. [PMID: 37712453 DOI: 10.1002/anie.202308974] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Revised: 09/12/2023] [Accepted: 09/14/2023] [Indexed: 09/16/2023]
Abstract
We have developed a new approach for the synthesis of "improbable" rotaxanes by using malonate-centered rotaxanes as interlocked surrogate precursors. Here, the desired dumbbell-shaped structure can be assembled from two different, completely separate, portions, with the only residual structure introduced from the malonate surrogate being a methylene group. We have synthesized improbable [2]- and [3]rotaxanes with all-hydrocarbon dumbbell-shaped components to demonstrate the potential structural flexibility and scope of the guest species that can be interlocked when using this approach.
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Affiliation(s)
- Chi-You Tsai
- Department of Chemistry and Center for Emerging Material and Advanced Devices, National Taiwan University, No. 1, Sec. 4, Roosevelt Road, Taipei, Taiwan
| | - Hung-Te Cheng
- Department of Chemistry and Center for Emerging Material and Advanced Devices, National Taiwan University, No. 1, Sec. 4, Roosevelt Road, Taipei, Taiwan
| | - Sheng-Hsien Chiu
- Department of Chemistry and Center for Emerging Material and Advanced Devices, National Taiwan University, No. 1, Sec. 4, Roosevelt Road, Taipei, Taiwan
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11
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Xie Y, Wang CY, Chen N, Cao Z, Wu G, Yin B, Li Y. Supramolecular Memristor Based on Bistable [2]Catenanes: Toward High-Density and Non-Volatile Memory Devices. Angew Chem Int Ed Engl 2023; 62:e202309605. [PMID: 37651501 DOI: 10.1002/anie.202309605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 08/31/2023] [Accepted: 08/31/2023] [Indexed: 09/01/2023]
Abstract
The ever-increasing demand for data storage and neuromorphic computing calls for innovative, high-density solutions, such as resistive random-access memory (RRAM). However, the integration of resistive switching and rectification at the nanoscale remains a formidable challenge. In this study, we introduce a bistable [2]catenane-based supramolecular junction that simultaneously functions as a resistive switch and a diode. All supramolecular junctions are highly stable and reproducible over thousands of resistive switching cycles, because the nano-confinement of two mechanically interlocked rings can stabilize the radical states of pyridinium moieties under ambient conditions. The successful realization of supramolecular junctions in functionality with a thickness of approximately 2 nm presents a promising avenue for the development of molecule-scale based RRAM for a better solution to high density and energy efficiency.
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Affiliation(s)
- Yu Xie
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Cai-Yun Wang
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Ningyue Chen
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Zhou Cao
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Guangcheng Wu
- Department of Chemistry, Northwestern University, Evanston, IL 60208, USA
| | - Bangchen Yin
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
| | - Yuan Li
- Key Laboratory of Organic Optoelectronics and Molecular Engineering of Ministry of Education, Department of Chemistry, Tsinghua University, Beijing, 100084, China
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12
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Hum G, Phang SJI, Ong HC, León F, Quek S, Khoo YXJ, Li C, Li Y, Clegg JK, Díaz J, Stuparu MC, García F. Main Group Molecular Switches with Swivel Bifurcated to Trifurcated Hydrogen Bond Mode of Action. J Am Chem Soc 2023. [PMID: 37267593 DOI: 10.1021/jacs.2c12713] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Artificial molecular machines have captured the full attention of the scientific community since Jean-Pierre Sauvage, Fraser Stoddart, and Ben Feringa were awarded the 2016 Nobel Prize in Chemistry. The past and current developments in molecular machinery (rotaxanes, rotors, and switches) primarily rely on organic-based compounds as molecular building blocks for their assembly and future development. In contrast, the main group chemical space has not been traditionally part of the molecular machine domain. The oxidation states and valency ranges within the p-block provide a tremendous wealth of structures with various chemical properties. Such chemical diversity─when implemented in molecular machines─could become a transformative force in the field. Within this context, we have rationally designed a series of NH-bridged acyclic dimeric cyclodiphosphazane species, [(μ-NH){PE(μ-NtBu)2PE(NHtBu)}2] (E = O and S), bis-PV2N2, displaying bimodal bifurcated R21(8) and trifurcated R31(8,8) hydrogen bonding motifs. The reported species reversibly switch their topological arrangement in the presence and absence of anions. Our results underscore these species as versatile building blocks for molecular machines and switches, as well as supramolecular chemistry and crystal engineering based on cyclophosphazane frameworks.
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Affiliation(s)
- Gavin Hum
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Si Jia Isabel Phang
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - How Chee Ong
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Felix León
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Shina Quek
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Yi Xin Joycelyn Khoo
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Chenfei Li
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Yongxin Li
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Jack K Clegg
- School of Chemistry and Molecular Biosciences, The University of Queensland, Cooper Road, St Lucia 4072, Queensland, Australia
| | - Jesús Díaz
- Departamento de Química Orgánica e Inorgánica, Facultad de Veterinaria Extremadura, Avda de la Universidad s/n, Cáceres 10003, Spain
| | - Mihaiela C Stuparu
- School of Chemistry, Chemical Engineering & Biotechnology, Nanyang Technological University, 21 Nanyang Link, 637371 Singapore, Singapore
| | - Felipe García
- Departamento de Química Orgánica e Inorgánica, Facultad de Química, Universidad de Oviedo, Julián Claveria 8, Oviedo 33006, Asturias, Spain
- School of Chemistry, Monash University, Clayton 3800, Victoria, Australia
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13
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Proximity binding-initiated DNA walker and CRISPR/Cas12a reaction for dual signal amplification detection of thrombin. Talanta 2023; 256:124286. [PMID: 36701857 DOI: 10.1016/j.talanta.2023.124286] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 01/17/2023] [Accepted: 01/18/2023] [Indexed: 01/22/2023]
Abstract
We report here a highly sensitive fluorescent thrombin biomarker sensing method by integrating the DNA walker and CRISPR/Cas12a system. The presence of thrombin causes the localization of DNA moving arms on AuNP tracks via their proximity bindings with the dye-labeled probes immobilized on AuNPs. With the assistance of the primer and DNA polymerase, the arm sequences move continuously on the AuNP tracks to generate many CRISPR/Cas12a-responsive dsDNAs, which push the dye to move away from AuNPs to restore its fluorescence. Moreover, the dsDNAs can be recognized and cut by the CRISPR/Cas12a to trigger its trans-cleavage activity for cyclically cleaving the fluorescently quenched signal probes on the AuNP tracks, which liberates the dye from AuNPs to further enhance the fluorescence restoration to achieve highly sensitive thrombin assay with detection limit of 29.5 fM. Selectively detecting thrombin against other interference proteins and in diluted serums by such sensing method has also been verified, making it an attractive approach for monitoring other protein biomarkers at low levels for the diagnosis of diseases.
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14
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Abstract
miRNAs in circulating blood have been regarded as promising biomarkers for the diagnosis of a series of diseases. Development of ultrasensitive, reliable, and convenient methods for miRNA assay is of great significance. Herein, we present a novel electrochemical sensing strategy. The assembly of DNA walker strands on membrane-coated nanomaterials, target-mediated recycling activation, and electrochemical signal enrichment are integrated. Multipedal DNA walking with magnetic cores and a catalytic hairpin assembly at the electrode lead to the increase of electrochemical response, which can be used to probe initial target miRNA. This DNA walking nanomachine shows enhanced signal amplification efficiency and facile magnetic separation steps. It enables rapid analysis of miRNA at the attomole level and performs satisfactorily in samples of human circulating blood. Given the powerful sensitivity, facile operation, and excellent specificity, this magnetic multipedal DNA walker provides a promising way to determine miRNA level for biomedical applications.
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Affiliation(s)
- Peng Miao
- Suzhou Institute of Biomedical Engineering and Technology, Chinese Academy of Sciences, Suzhou 215163, People's Republic of China
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15
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Singhania A, Chatterjee S, Kalita S, Saha S, Chettri P, Gayen FR, Saha B, Sahoo P, Bandyopadhyay A, Ghosh S. An Inbuilt Electronic Pawl Gates Orbital Information Processing and Controls the Rotation of a Double Ratchet Rotary Motor. ACS APPLIED MATERIALS & INTERFACES 2023; 15:15595-15604. [PMID: 36926805 DOI: 10.1021/acsami.3c01103] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
A direct external input energy source (e.g., light, chemical reaction, redox potential, etc.) is compulsory to supply energy to rotary motors for accomplishing rotation around the axis. The stator leads the direction of rotation, and a sustainable rotation requires two mutual input energy supplies (e.g., light and heat, light and pH or metal ion, etc.); however, there are some exceptions (e.g., covalent single bond rotors and/or motors). On the contrary, our experiment suggested that double ratchet rotary motors (DRMs) can harvest power from available thermal noise, kT, for sustainable rotation around the axis. Under a scanning tunneling microscope, we have imaged live thermal noise movement as a dynamic orbital density and resolved the density diagram up to the second derivative. A second input energy can synchronize multiple rotors to afford a measurable output. Therefore, we hypothesized that rotation control in a DRM must be evolved from an orbital-level information transport channel between the two coupled rotors but was not limited to the second input energy. A DRM comprises a Brownian rotor and a power stroke rotor coupled to a -C≡C- stator, where the transport of information through coupled orbitals between the two rotors is termed the vibrational information flow chain (VIFC). We test this hypothesis by studying the DRM's density functional theory calculation and variable-temperature 1H nuclear magnetic resonance. Additionally, we introduced inbuilt pawl-like functional moieties into a DRM to create different electronic environments by changing proton intercalation interactions, which gated information processing through the VIFC. The results show the VIFC can critically impact the motor's noise harvesting, resulting in variable rotational motions in DRMs.
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Affiliation(s)
- Anup Singhania
- Natural Product Chemistry Group, Chemical Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Satadru Chatterjee
- Natural Product Chemistry Group, Chemical Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
| | - Sudeshna Kalita
- Natural Product Chemistry Group, Chemical Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Supriya Saha
- Advanced Computation & Data Sciences Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
- Green Engineered Materials and Additive Manufacturing Division, CSIR-AMPRI, 462026 Bhopal, Madhya Pradesh, India
| | - Prerna Chettri
- Natural Product Chemistry Group, Chemical Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Firdaus Rahaman Gayen
- Advanced Materials Group, Material Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Biswajit Saha
- Advanced Materials Group, Material Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Pathik Sahoo
- International Center for Materials and Nanoarchitectronics (MANA) and Research Center for Advanced Measurement and Characterization (RCAMC), National Institute for Materials Science (NIMS), 1-2-1 Sengen, Tsukuba, Ibaraki 3050047, Japan
| | - Anirban Bandyopadhyay
- International Center for Materials and Nanoarchitectronics (MANA) and Research Center for Advanced Measurement and Characterization (RCAMC), National Institute for Materials Science (NIMS), 1-2-1 Sengen, Tsukuba, Ibaraki 3050047, Japan
| | - Subrata Ghosh
- Natural Product Chemistry Group, Chemical Sciences & Technology Division, CSIR-North East Institute of Science & Technology, Jorhat 785006, Assam, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
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16
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Kim H, Shin J, Kim S, Lee D. Helical fluxionality: numerical frustration drives concerted low-barrier screw motions of a tricopper cluster. Chem Sci 2023; 14:3265-3269. [PMID: 36970079 PMCID: PMC10034190 DOI: 10.1039/d3sc00851g] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Accepted: 02/24/2023] [Indexed: 03/05/2023] Open
Abstract
Uneven allocation of resources creates frustration, tension, and conflicts. Confronted with an apparent mismatch between the number of donor atoms and the number of metal atoms to be supported, helically twisted ligands cleverly come up with a sustainable symbiotic solution. As an example, we present a tricopper metallohelicate exhibiting screw motions for intramolecular site exchange. A combination of X-ray crystallographic and solution NMR spectroscopic studies revealed thermo-neutral site exchange of three metal centres hopping back and forth inside the helical cavity lined by a spiral staircase-like arrangement of ligand donor atoms. This hitherto unknown helical fluxionality is a superimposition of translational and rotational movements of molecular actuation, taking the shortest path with an extraordinarily low energy barrier without compromising the overall structural integrity of the metal-ligand assembly.
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Affiliation(s)
- Heechan Kim
- Department of Chemistry, Seoul National University 1 Gwanak-ro, Gwanak-gu Seoul 08826 Korea
| | - Juhwan Shin
- Department of Chemistry, Seoul National University 1 Gwanak-ro, Gwanak-gu Seoul 08826 Korea
| | - Seyong Kim
- Department of Chemistry, Seoul National University 1 Gwanak-ro, Gwanak-gu Seoul 08826 Korea
| | - Dongwhan Lee
- Department of Chemistry, Seoul National University 1 Gwanak-ro, Gwanak-gu Seoul 08826 Korea
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17
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Liu L, Fang WH, Martinez TJ. A Nitrogen Out-of-Plane (NOOP) Mechanism for Imine-Based Light-Driven Molecular Motors. J Am Chem Soc 2023; 145:6888-6898. [PMID: 36920260 DOI: 10.1021/jacs.3c00275] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/16/2023]
Abstract
Light-driven molecular motors have generated considerable interest due to their potential applications in material and biological systems. Recently, Greb and Lehn reported a new class of molecular motors, chiral N-alkyl imines, which undergo unidirectional rotation induced by light and heat. The mechanism of unidirectional motion in molecular motors containing a C═N group has been assumed to consist of photoinduced torsion about the double bond. In this work, we present a computational study of the photoisomerization dynamics of a chiral N-alkyl imine motor. We find that the location and energetics of minimal energy conical intersections (MECIs) alone are insufficient to understand the mechanism of the motor. Furthermore, a key part of the mechanism consists of out-of-plane distortions of the N atom (followed by isomerization about the double bond). Dynamic effects and out-of-plane distortions are critical to understand the observed (rather low) quantum yield for photoisomerization. Our results provide hints as to how the photoisomerization quantum yield might be increased, improving the efficiency of this class of molecular motors.
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Affiliation(s)
- Lihong Liu
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China.,Department of Chemistry and PULSE Institute, Stanford University, Stanford, California 94305, United States.,SLAC National Accelerator Laboratory, Menlo Park, California 94025, United States
| | - Wei-Hai Fang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Todd J Martinez
- Department of Chemistry and PULSE Institute, Stanford University, Stanford, California 94305, United States.,SLAC National Accelerator Laboratory, Menlo Park, California 94025, United States
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18
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Saura‐Sanmartin A, Schalley CA. The Mobility of Homomeric Lasso‐ and Daisy Chain‐Like Rotaxanes in Solution and in the Gas Phase as a means to Study Structure and Switching Behaviour. Isr J Chem 2023. [DOI: 10.1002/ijch.202300022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2023]
Affiliation(s)
- Adrian Saura‐Sanmartin
- Departamento de Química Orgánica Facultad de Química Universidad de Murcia Calle Campus Universitario, 5 30100 Murcia Spain
- Institut für Chemie und Biochemie Freie Universität Berlin Arnimallee 20 14195 Berlin Germany
| | - Christoph A. Schalley
- Institut für Chemie und Biochemie Freie Universität Berlin Arnimallee 20 14195 Berlin Germany
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19
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Zhou ZR, Li DW, Qian RC, Ju H. DNAzyme-Powered DNA Walker for Cooperative Expression Imaging of Mutant p53 and Telomerase in Cancer Cells. Anal Chem 2023; 95:4122-4130. [PMID: 36800274 DOI: 10.1021/acs.analchem.2c05111] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2023]
Abstract
Cooperative expression of multiple cancer biomarkers is of great significance in influencing cell pathways and drug treatment. However, the simultaneous analysis of low-abundance biomarkers in living cells remains a challenge. Here, we report a DNAzyme-powered DNA walker to visualize the cooperative expression of mutant p53 and telomerase in living cells. The activation of the DNA walker is orthogonally powered by mutated p53 and telomerase, which enables the unlocking of the walking strand and the subsequently repeated substrate cleavage, producing fluorescence recovery for the imaging of the two target molecules in living cells. The DNA walker allows for real-time monitoring of the expression profile of mutant p53 and active telomerase in cancer cells under various antitumor drug treatments, and the results demonstrate the cooperative expression of mutant p53 and telomerase via the Akt pathway, which may bring new insights into the study of cancer pathway-relevant biomarkers.
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Affiliation(s)
- Ze-Rui Zhou
- Key Laboratory for Advanced Materials, Feringa Nobel Prize Scientist Joint Research Center, Joint International Laboratory for Precision Chemistry, Frontiers Science Center for Materiobiology & Dynamic Chemistry, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Da-Wei Li
- Key Laboratory for Advanced Materials, Feringa Nobel Prize Scientist Joint Research Center, Joint International Laboratory for Precision Chemistry, Frontiers Science Center for Materiobiology & Dynamic Chemistry, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Ruo-Can Qian
- Key Laboratory for Advanced Materials, Feringa Nobel Prize Scientist Joint Research Center, Joint International Laboratory for Precision Chemistry, Frontiers Science Center for Materiobiology & Dynamic Chemistry, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Huangxian Ju
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
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20
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Ragazzon G, Malferrari M, Arduini A, Secchi A, Rapino S, Silvi S, Credi A. Autonomous Non-Equilibrium Self-Assembly and Molecular Movements Powered by Electrical Energy. Angew Chem Int Ed Engl 2023; 62:e202214265. [PMID: 36422473 PMCID: PMC10107654 DOI: 10.1002/anie.202214265] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 11/07/2022] [Accepted: 11/22/2022] [Indexed: 11/25/2022]
Abstract
The ability to exploit energy autonomously is one of the hallmarks of life. Mastering such processes in artificial nanosystems can open technological opportunities. In the last decades, light- and chemically driven autonomous systems have been developed in relation to conformational motion and self-assembly, mostly in relation to molecular motors. In contrast, despite electrical energy being an attractive energy source to power nanosystems, its autonomous harnessing has received little attention. Herein we consider an operation mode that allows the autonomous exploitation of electrical energy by a self-assembling system. Threading and dethreading motions of a pseudorotaxane take place autonomously in solution, powered by the current flowing between the electrodes of a scanning electrochemical microscope. The underlying autonomous energy ratchet mechanism drives the self-assembly steps away from equilibrium with a higher energy efficiency compared to other autonomous systems. The strategy is general and might be extended to other redox-driven systems.
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Affiliation(s)
- Giulio Ragazzon
- Institut de Science et d'Ingégnierie Supramoléculaires (ISIS) UMR 7006, University of Strasbourg, CNRS, 8 allée Gaspard Monge, 67000, Strasbourg, France
| | - Marco Malferrari
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via Selmi 2, 40126, Bologna, Italy
| | - Arturo Arduini
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124, Parma, Italy
| | - Andrea Secchi
- Dipartimento di Scienze Chimiche, della Vita e della Sostenibilità Ambientale, Università di Parma, Parco Area delle Scienze 17/A, 43124, Parma, Italy
| | - Stefania Rapino
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via Selmi 2, 40126, Bologna, Italy
| | - Serena Silvi
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via Selmi 2, 40126, Bologna, Italy.,CLAN-Center for Light-Activated Nanostructures (CLAN), Università di Bologna and Consiglio Nazionale delle Ricerche, via Gobetti 101, 40129, Bologna, Italy
| | - Alberto Credi
- CLAN-Center for Light-Activated Nanostructures (CLAN), Università di Bologna and Consiglio Nazionale delle Ricerche, via Gobetti 101, 40129, Bologna, Italy.,Dipartimento di Chimica Industriale "Toso Montanari", Università di Bologna, viale del Risorgimento 4, 40136, Bologna, Italy
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21
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Chen X, Chen H, Fraser Stoddart J. The Story of the Little Blue Box: A Tribute to Siegfried Hünig. Angew Chem Int Ed Engl 2023; 62:e202211387. [PMID: 36131604 PMCID: PMC10099103 DOI: 10.1002/anie.202211387] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Indexed: 02/02/2023]
Abstract
The tetracationic cyclophane, cyclobis(paraquat-p-phenylene), also known as the little blue box, constitutes a modular receptor that has facilitated the discovery of many host-guest complexes and mechanically interlocked molecules during the past 35 years. Its versatility in binding small π-donors in its tetracationic state, as well as forming trisradical tricationic complexes with viologen radical cations in its doubly reduced bisradical dicationic state, renders it valuable for the construction of various stimuli-responsive materials. Since the first reports in 1988, the little blue box has been featured in over 500 publications in the literature. All this research activity would not have been possible without the seminal contributions carried out by Siegfried Hünig, who not only pioneered the syntheses of viologen-containing cyclophanes, but also revealed their rich redox chemistry in addition to their ability to undergo intramolecular π-dimerization. This Review describes how his pioneering research led to the design and synthesis of the little blue box, and how this redox-active host evolved into the key component of molecular shuttles, switches, and machines.
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Affiliation(s)
- Xiao‐Yang Chen
- Department of ChemistryNorthwestern University2145 Sheridan RoadEvanstonIllinois 60208USA
| | - Hongliang Chen
- Stoddart Institute of Molecular ScienceDepartment of ChemistryZhejiang UniversityHangzhou310027China
- ZJU-Hangzhou Global Scientific and Technological Innovation CenterHangzhou311215China
| | - J. Fraser Stoddart
- Department of ChemistryNorthwestern University2145 Sheridan RoadEvanstonIllinois 60208USA
- Stoddart Institute of Molecular ScienceDepartment of ChemistryZhejiang UniversityHangzhou310027China
- ZJU-Hangzhou Global Scientific and Technological Innovation CenterHangzhou311215China
- School of ChemistryUniversity of New South WalesSydneyNSW 2052Australia
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22
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Zhang L, Qiu Y, Liu WG, Chen H, Shen D, Song B, Cai K, Wu H, Jiao Y, Feng Y, Seale JSW, Pezzato C, Tian J, Tan Y, Chen XY, Guo QH, Stern CL, Philp D, Astumian RD, Goddard WA, Stoddart JF. An electric molecular motor. Nature 2023; 613:280-286. [PMID: 36631649 PMCID: PMC9834048 DOI: 10.1038/s41586-022-05421-6] [Citation(s) in RCA: 26] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Accepted: 10/06/2022] [Indexed: 01/12/2023]
Abstract
Macroscopic electric motors continue to have a large impact on almost every aspect of modern society. Consequently, the effort towards developing molecular motors1-3 that can be driven by electricity could not be more timely. Here we describe an electric molecular motor based on a [3]catenane4,5, in which two cyclobis(paraquat-p-phenylene)6 (CBPQT4+) rings are powered by electricity in solution to circumrotate unidirectionally around a 50-membered loop. The constitution of the loop ensures that both rings undergo highly (85%) unidirectional movement under the guidance of a flashing energy ratchet7,8, whereas the interactions between the two rings give rise to a two-dimensional potential energy surface (PES) similar to that shown by FOF1 ATP synthase9. The unidirectionality is powered by an oscillating10 voltage11,12 or external modulation of the redox potential13. Initially, we focused our attention on the homologous [2]catenane, only to find that the kinetic asymmetry was insufficient to support unidirectional movement of the sole ring. Accordingly, we incorporated a second CBPQT4+ ring to provide further symmetry breaking by interactions between the two mobile rings. This demonstration of electrically driven continual circumrotatory motion of two rings around a loop in a [3]catenane is free from the production of waste products and represents an important step towards surface-bound14 electric molecular motors.
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Affiliation(s)
- Long Zhang
- Department of Chemistry, Northwestern University, Evanston, IL, USA.
| | - Yunyan Qiu
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Wei-Guang Liu
- Materials and Process Simulation Center, California Institute of Technology, Pasadena, CA, USA
| | - Hongliang Chen
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou, China
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, China
| | - Dengke Shen
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- Institutes of Physical Science and Information Technology, Anhui University, Hefei, China
| | - Bo Song
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Kang Cai
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- Department of Chemistry, Nankai University, Tianjin, China
| | - Huang Wu
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Yang Jiao
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Yuanning Feng
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - James S W Seale
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Cristian Pezzato
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- Institut des Sciences et Ingénierie Chimiques, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Department of Chemical Sciences, University of Padova, Padova, Italy
| | - Jia Tian
- Key Laboratory of Synthetic and Self-Assembly Chemistry for Organic Functional Molecules, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai, China
| | - Yu Tan
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- School of Chemical Engineering and Technology, Sun Yat-sen University, Zhuhai, China
| | - Xiao-Yang Chen
- Department of Chemistry, Northwestern University, Evanston, IL, USA
| | - Qing-Hui Guo
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou, China
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, China
| | | | - Douglas Philp
- Department of Chemistry, Northwestern University, Evanston, IL, USA
- School of Chemistry, University of St Andrews, North Haugh, St Andrews, UK
| | - R Dean Astumian
- Department of Physics and Astronomy, University of Maine, Orono, ME, USA.
| | - William A Goddard
- Materials and Process Simulation Center, California Institute of Technology, Pasadena, CA, USA.
| | - J Fraser Stoddart
- Department of Chemistry, Northwestern University, Evanston, IL, USA.
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou, China.
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, China.
- School of Chemistry, University of New South Wales, Sydney, New South Wales, Australia.
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23
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Courtine C, Hamouda I, Pearson S, Billon L, Lavedan P, Ladeira S, Micheau JC, Pimienta V, Nicol E, Lauth de Viguerie N, Mingotaud AF. Photoswitchable assembly of long-lived azobenzenes in water using visible light. J Colloid Interface Sci 2023; 629:670-684. [DOI: 10.1016/j.jcis.2022.08.191] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 08/30/2022] [Accepted: 08/31/2022] [Indexed: 11/28/2022]
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24
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Saura-Sanmartin A, Nicolas-Garcia T, Pastor A, Quiñonero D, Alajarin M, Martinez-Cuezva A, Berna J. Control of the assembly of a cyclic hetero[4]pseudorotaxane from a self-complementary [2]rotaxane. Chem Sci 2023; 14:4143-4151. [PMID: 37063802 PMCID: PMC10094293 DOI: 10.1039/d3sc00886j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 03/22/2023] [Indexed: 03/30/2023] Open
Abstract
The self-association of a ditopic [2]rotaxane with two macrocycles mainly leads to a [4]pseudorotaxane which can be reversibly disassembled by adding competitive binders, varying the solvent polarity and changing a binding site affinity.
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Affiliation(s)
- Adrian Saura-Sanmartin
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
| | - Tomas Nicolas-Garcia
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
| | - Aurelia Pastor
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
| | - David Quiñonero
- Departamento de Química, Universidad de las Islas Baleares Crta de Valldemossa km 7.5 E-07122 Palma de Mallorca (Baleares) Spain
| | - Mateo Alajarin
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
| | - Alberto Martinez-Cuezva
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
| | - Jose Berna
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum" 30100 Murcia Spain
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25
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Foy JT, Ta N, Hoyt J, Staples RJ, Ehm C. Photoswitching Properties of 5‐Methoxy‐2‐ (2‐phenyldiazenyl) Pyridine. ChemistrySelect 2022. [DOI: 10.1002/slct.202204517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Justin T. Foy
- Department of Physical and Biological Sciences Western New England University 1215 Wilbraham Rd Springfield MA 01119 Unites States
| | - Nicholas Ta
- Department of Physical and Biological Sciences Western New England University 1215 Wilbraham Rd Springfield MA 01119 Unites States
| | - Johnathon Hoyt
- Department of Physical and Biological Sciences Western New England University 1215 Wilbraham Rd Springfield MA 01119 Unites States
| | - Richard J. Staples
- Department of Chemistry Michigan State University 578 S. Shaw Lane East Lansing MI 48824
| | - Christian Ehm
- Dipartimento di Scienze Chimiche Università di Napoli Federico II Via Cintia, Complesso di Monte San Angelo 80126 Napoli Italy
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26
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Towards the engineering of a photon-only two-stroke rotary molecular motor. Nat Commun 2022; 13:6433. [PMID: 36307476 PMCID: PMC9616945 DOI: 10.1038/s41467-022-33695-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Accepted: 09/27/2022] [Indexed: 12/25/2022] Open
Abstract
The rational engineering of photoresponsive materials, e.g., light-driven molecular motors, is a challenging task. Here, we use structure-related design rules to prepare a prototype molecular rotary motor capable of completing an entire revolution using, exclusively, the sequential absorption of two photons; i.e., a photon-only two-stroke motor. The mechanism of rotation is then characterised using a combination of non-adiabatic dynamics simulations and transient absorption spectroscopy measurements. The results show that the rotor moiety rotates axially relative to the stator and produces, within a few picoseconds at ambient T, an intermediate with the same helicity as the starting structure. We discuss how such properties, that include a 0.25 quantum efficiency, can help overcome the operational limitations of the classical overcrowded alkene designs.
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27
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Luo Y, Zhang W, Yang XN, Yang MX, Min W, Tao Z, Xiao X. Cucurbit[10]uril-Based Orthogonal Supramolecular Polymers with Host-Guest and Coordination Interactions and Its Applications in Anion Classification. Inorg Chem 2022; 61:16678-16684. [PMID: 36206319 DOI: 10.1021/acs.inorgchem.2c02333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A novel orthogonal supramolecular polymer (Q[10]-TPDPB-Lu3+) in a host-guest ratio of 2:1 was successfully constructed utilizing the specificity and excellent cavity matching of Q[10] with the tripyridine derivatives (TPDPB). Significantly, non-covalent interactions between Q[10]'s hydrophobic cavities and Lu3+ were used to induce charge transfer of TPDPB to TPDPB and TPDPB to Lu3+, resulting in the construction of structurally interesting orthogonal assemblies with excellent fluorescence properties. Finally, the Q[10]-TPDPB-Lu3+ assemblies were shown to have good recognition and classification of strong and weak acid anions as well as iodide anions, and the classification was accompanied by a clear fluorescence emission change allowing visual observation.
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Affiliation(s)
- Yang Luo
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Wei Zhang
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Xi Nan Yang
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Mao Xia Yang
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Wen Min
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Zhu Tao
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
| | - Xin Xiao
- Key Laboratory of Macrocyclic and Supramolecular Chemistry of Guizhou Province, Applied Chemistry, Guizhou University, Guiyang 550025, China
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28
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Du CX, Zhang HA, Pearson TG, Ng J, McEuen PL, Cohen I, Brenner MP. Programming interactions in magnetic handshake materials. SOFT MATTER 2022; 18:6404-6410. [PMID: 35979744 DOI: 10.1039/d2sm00604a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The ability to rapidly manufacture building blocks with specific binding interactions is a key aspect of programmable assembly. Recent developments in DNA nanotechnology and colloidal particle synthesis have significantly advanced our ability to create particle sets with programmable interactions, based on DNA or shape complementarity. The increasing miniaturization underlying magnetic storage offers a new path for engineering programmable components for self assembly, by printing magnetic dipole patterns on substrates using nanotechnology. How to efficiently design dipole patterns for programmable assembly remains an open question as the design space is combinatorially large. Here, we present design rules for programming these magnetic interactions. By optimizing the structure of the dipole pattern, we demonstrate that the number of independent building blocks scales super linearly with the number of printed domains. We test these design rules using computational simulations of self assembled blocks, and experimental realizations of the blocks at the mm scale, demonstrating that the designed blocks give high yield assembly. In addition, our design rules indicate that with current printing technology, micron sized magnetic panels could easily achieve hundreds of different building blocks.
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Affiliation(s)
- Chrisy Xiyu Du
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02139, USA.
| | - Hanyu Alice Zhang
- School of Applied and Engineering Physics, Cornell University, Ithaca, NY, 14853, USA
| | - Tanner G Pearson
- Department of Physics, Cornell University, Ithaca, NY, 14853, USA
| | - Jakin Ng
- Department of Physics, Cornell University, Ithaca, NY, 14853, USA
| | - Paul L McEuen
- Department of Physics, Cornell University, Ithaca, NY, 14853, USA
- Laboratory of Atomic and Solid-State Physics, Cornell University, Ithaca, NY, 14853, USA
| | - Itai Cohen
- Department of Physics, Cornell University, Ithaca, NY, 14853, USA
- Laboratory of Atomic and Solid-State Physics, Cornell University, Ithaca, NY, 14853, USA
| | - Michael P Brenner
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02139, USA.
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29
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Cui MR, Chen Y, Zhu D, Chao J. Intelligent Programmable DNA Nanomachines for the Spatially Controllable Imaging of Intracellular MicroRNA. Anal Chem 2022; 94:10874-10884. [PMID: 35856834 DOI: 10.1021/acs.analchem.2c02299] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The high programmability of DNA molecules makes them particularly suitable for constructing artificial molecular machines to perform sophisticated functions by simulating complex living systems. However, intelligent DNA nanomachines which can perform precise tasks logically in complex environments still remain challenging. Herein, we develop a general strategy to design a pH-responsive programmable DNA (PRPD) nanomachine to perform multilayer DNA cascades, enabling precise sensing and calculation of intracellular biomolecules. The PRPD nanomachine is built on a four-stranded DNAzyme walker precursor with a DNA switch on the surface of an Au nanoparticle, which is capable of precisely responding to pH variations in living cells by sequence tuning. This multilayer DNA cascade networks have been applicated in spatially controlled imaging of intracellular microRNA, which efficiently avoided the DNA nanomachine activated by nonspecific extracellular molecules and achieved apparent signal amplification. Our strategy enables the sensing-computing-output functional integration of DNA nanomachines, facilitating the application of programmable and complex nanomachines in nanoengineering, chemistry, and biomedicine.
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Affiliation(s)
- Mei-Rong Cui
- Key Laboratory for Organic Electronics and Information Displays, Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts and Telecommunications, Nanjing 210023, P. R. China
| | - Yan Chen
- Key Laboratory for Organic Electronics and Information Displays, Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts and Telecommunications, Nanjing 210023, P. R. China
| | - Dan Zhu
- Key Laboratory for Organic Electronics and Information Displays, Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts and Telecommunications, Nanjing 210023, P. R. China
| | - Jie Chao
- Key Laboratory for Organic Electronics and Information Displays, Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts and Telecommunications, Nanjing 210023, P. R. China
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30
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Chen Y, Meng X, Lu H, Dong H. Engineering DNA walkers for bioanalysis: A review. Anal Chim Acta 2022; 1209:339339. [PMID: 35569865 DOI: 10.1016/j.aca.2021.339339] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2021] [Revised: 11/25/2021] [Accepted: 11/27/2021] [Indexed: 11/19/2022]
Abstract
Considerable advances have been made in the design, modularization, functionalization, and regulation of DNA nanostructures over the past 40 years. These advances have accelerated the development of DNA nanomachines such as DNA walkers, dynamic nanomachines with walking feet, tracks, and driven forces, which have highly sensitive detection and signal amplification abilities that can be applied to various bioanalytical contexts and therapeutic strategies. Here, we describe a rational design of the nano-bio interface, the kinetics of DNA walkers and the strategies for improving their efficiency and sensitivity. We also outline the various bioanalytic and imaging applications to which DNA walkers have been applied, such as electrochemical and optical measurements, when integrated with other simulation and activation tools. Finally, we compare the performances of novel DNA walker-based strategies for bioanalysis and propose a method to improve DNA walker design.
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Affiliation(s)
- Yuchao Chen
- Research Center for Bioengineering and Sensing Technology, School of Chemical and Bioengineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing, 100083, China
| | - Xiangdan Meng
- Research Center for Bioengineering and Sensing Technology, School of Chemical and Bioengineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing, 100083, China.
| | - Huiting Lu
- Department of Chemistry, School of Chemistry and Bioengineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing, 100083, China.
| | - Haifeng Dong
- Research Center for Bioengineering and Sensing Technology, School of Chemical and Bioengineering, University of Science and Technology Beijing, 30 Xueyuan Road, Beijing, 100083, China; Marshall Laboratory of Biomedical Engineering, School of Biomedical Engineering, Health Science Centre, Shenzhen University, Shenzhen, 518071, China.
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31
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Ji C, Yu C, Song M, Pei H, Fu P, Lin Y, Wang J. Construction of Molecular Transporter Based on DNA Structure Regulation. ACS APPLIED BIO MATERIALS 2022; 5:2122-2129. [PMID: 35481744 DOI: 10.1021/acsabm.2c00222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
This study aims to build a molecular transporter machine that is based on the microstructure regulation of DNA triplets, which can automatically search, load, target delivery, and unload target protein molecules. The design of the molecular transporter includes: (1) a DNA triplet, which can recognize and load of the target protein; (2) a similar DNA triplet realizing the target transport; and (3) the signal-indicating DNA, which is connected at the target destination to achieve fixation of the target protein at the target destination. The molecular transporter machine would provide research practice and theoretical guidance for the development of DNA-based molecular machines.
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Affiliation(s)
- Chengdong Ji
- Zybio Inc, Chongqing, 400082, China.,Key Laboratory of Luminescence Analysis and Molecular Sensing (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Chunchun Yu
- Department of Clinical Laboratory, The Second Affiliated Hospital of Hainan Medical University, Haikou, 570311, China
| | - Min Song
- Department of Transfusion Medicine, Southwest Hospital, Third Military Medical University (Army Medical University), Chongqing 400038, China
| | - Hua Pei
- Department of Clinical Laboratory, The Second Affiliated Hospital of Hainan Medical University, Haikou, 570311, China
| | | | | | - Jing Wang
- Zybio Inc, Chongqing, 400082, China.,College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
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32
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Liu XR, Hu X, Loh IY, Wang Z. A high-fidelity light-powered nanomotor from a chemically fueled counterpart via site-specific optomechanical fuel control. NANOSCALE 2022; 14:5899-5914. [PMID: 35373800 DOI: 10.1039/d1nr07964f] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Optically powered nanomotors are advantageous for clean nanotechnology over chemically fuelled nanomotors. The two motor types are further bounded by different physical principles. Despite the gap, we show here that an optically powered DNA bipedal nanomotor is readily created from a high-performing chemically fuelled counterpart by subjecting its fuel to cyclic site-specific optomechanical control - as if the fuel is optically recharged. Optimizing azobenzene-based control of the original nucleotide fuel selects a light-responsive fuel analog that replicates the different binding affinity of the fuel and reaction products. The resultant motor largely retains high-performing features of the original chemical motor, and achieves the highest directional fidelity among reported light-driven DNA nanomotors. This study thus demonstrates a novel strategy for transforming chemical nanomotors to optical ones for clean nanotechnology. The strategy is potentially applicable to many chemical nanomotors with oligomeric fuels like nucleotides, peptides and synthetic polymers, leading to a new class of light-powered nanomotors that are akin to chemical nanomotors and benefit from their generally high efficiency mechanistically. The motor from this study also provides a rare model system for studying the subtle boundary between chemical and optical nanomotors - a topic pertinent to chemomechanical and optomechanical energy conversion at the single-molecule level.
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Affiliation(s)
- Xiao Rui Liu
- Department of Physics, National University of Singapore, Singapore 117542
| | - Xinpeng Hu
- Department of Physics, National University of Singapore, Singapore 117542
| | - Iong Ying Loh
- Department of Physics, National University of Singapore, Singapore 117542
| | - Zhisong Wang
- Department of Physics, National University of Singapore, Singapore 117542
- NUS Graduate School for Integrative Sciences and Engineering, National University of Singapore, Singapore 117542.
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33
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Hou J, Long G, Zhao W, Zhou G, Liu D, Broer DJ, Feringa BL, Chen J. Phototriggered Complex Motion by Programmable Construction of Light-Driven Molecular Motors in Liquid Crystal Networks. J Am Chem Soc 2022; 144:6851-6860. [PMID: 35380815 PMCID: PMC9026258 DOI: 10.1021/jacs.2c01060] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
Recent developments
in artificial molecular machines have enabled
precisely controlled molecular motion, which allows several distinct
mechanical operations at the nanoscale. However, harnessing and amplifying
molecular motion along multiple length scales to induce macroscopic
motion are still major challenges and comprise an important next step
toward future actuators and soft robotics. The key to addressing this
challenge relies on effective integration of synthetic molecular machines
in a hierarchically aligned structure so numerous individual molecular
motions can be collected in a cooperative way and amplified to higher
length scales and eventually lead to macroscopic motion. Here, we
report the complex motion of liquid crystal networks embedded with
molecular motors triggered by single-wavelength illumination. By design,
both racemic and enantiomerically pure molecular motors are programmably
integrated into liquid crystal networks with a defined orientation.
The motors have multiple functions acting as cross-linkers, actuators,
and chiral dopants inside the network. The collective rotary motion
of motors resulted in multiple types of motion of the polymeric film,
including bending, wavy motion, fast unidirectional movement on surfaces,
and synchronized helical motion with different handedness, paving
the way for the future design of responsive materials with enhanced
complex functions.
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Affiliation(s)
- Jiaxin Hou
- SCNU-UG International Joint Laboratory of Molecular Science and Displays, National Center for International Research on Green Optoelectronics, South China Normal University, Guangzhou 510006, China.,Stratingh Institute for Chemistry, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Guiying Long
- SCNU-UG International Joint Laboratory of Molecular Science and Displays, National Center for International Research on Green Optoelectronics, South China Normal University, Guangzhou 510006, China
| | - Wei Zhao
- SCNU-TUE Joint lab of Device Integrated Responsive Materials (DIRM), Guangdong Provincial Key Laboratory of Optical Information Materials and Technology & Institute of Electronic Paper Displays, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou 510006, China
| | - Guofu Zhou
- SCNU-UG International Joint Laboratory of Molecular Science and Displays, National Center for International Research on Green Optoelectronics, South China Normal University, Guangzhou 510006, China.,SCNU-TUE Joint lab of Device Integrated Responsive Materials (DIRM), Guangdong Provincial Key Laboratory of Optical Information Materials and Technology & Institute of Electronic Paper Displays, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou 510006, China
| | - Danqing Liu
- SCNU-TUE Joint lab of Device Integrated Responsive Materials (DIRM), Guangdong Provincial Key Laboratory of Optical Information Materials and Technology & Institute of Electronic Paper Displays, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou 510006, China.,Stimuli-responsive Functional Materials and Devices, Department of Chemical Engineering and Chemistry, Eindhoven University of Technology, Den Dolech 2, Eindhoven 5600 MB, The Netherlands
| | - Dirk J Broer
- SCNU-TUE Joint lab of Device Integrated Responsive Materials (DIRM), Guangdong Provincial Key Laboratory of Optical Information Materials and Technology & Institute of Electronic Paper Displays, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou 510006, China.,Stimuli-responsive Functional Materials and Devices, Department of Chemical Engineering and Chemistry, Eindhoven University of Technology, Den Dolech 2, Eindhoven 5600 MB, The Netherlands
| | - Ben L Feringa
- SCNU-UG International Joint Laboratory of Molecular Science and Displays, National Center for International Research on Green Optoelectronics, South China Normal University, Guangzhou 510006, China.,Stratingh Institute for Chemistry, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Jiawen Chen
- SCNU-UG International Joint Laboratory of Molecular Science and Displays, National Center for International Research on Green Optoelectronics, South China Normal University, Guangzhou 510006, China
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34
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Jeong Y, Jin S, Palanikumar L, Choi H, Shin E, Go EM, Keum C, Bang S, Kim D, Lee S, Kim M, Kim H, Lee KH, Jana B, Park MH, Kwak SK, Kim C, Ryu JH. Stimuli-Responsive Adaptive Nanotoxin to Directly Penetrate the Cellular Membrane by Molecular Folding and Unfolding. J Am Chem Soc 2022; 144:5503-5516. [PMID: 35235326 DOI: 10.1021/jacs.2c00084] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Biological nanomachines, including proteins and nucleic acids whose function is activated by conformational changes, are involved in every biological process, in which their dynamic and responsive behaviors are controlled by supramolecular recognition. The development of artificial nanomachines that mimic the biological functions for potential application as therapeutics is emerging; however, it is still limited to the lower hierarchical level of the molecular components. In this work, we report a synthetic machinery nanostructure in which actuatable molecular components are integrated into a hierarchical nanomaterial in response to external stimuli to regulate biological functions. Two nanometers core-sized gold nanoparticles are covered with ligand layers as actuatable components, whose folding/unfolding motional response to the cellular environment enables the direct penetration of the nanoparticles across the cellular membrane to disrupt intracellular organelles. Furthermore, the pH-responsive conformational movements of the molecular components can induce the apoptosis of cancer cells. This strategy based on the mechanical motion of molecular components on a hierarchical nanocluster would be useful to design biomimetic nanotoxins.
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Affiliation(s)
- Youngdo Jeong
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,Department of HY-KIST Bio-convergence, Hanyang University, Seoul 04763, Republic of Korea
| | - Soyeong Jin
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,Department of Chemistry, School of Natural Sciences, Hanyang University, Seoul 04763, Republic of Korea
| | - L Palanikumar
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
| | - Huyeon Choi
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
| | - Eunhye Shin
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Eun Min Go
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Changjoon Keum
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea
| | - Seunghwan Bang
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,Division of Bio-Medical Science & Technology, Biomedical Engineering, KIST School, Korea University of Science and Technology (UST), Seoul 02792, Republic of Korea
| | - Dongkap Kim
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,Department of Chemistry, School of Natural Sciences, Hanyang University, Seoul 04763, Republic of Korea
| | - Seungho Lee
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
| | - Minsoo Kim
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,Department of Chemistry, School of Natural Sciences, Hanyang University, Seoul 04763, Republic of Korea
| | - Hojun Kim
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea
| | - Kwan Hyi Lee
- Biomaterials Research Center, Biomedical Research Division, Korea Institute of Science and Technology (KIST), Seoul 02792, Republic of Korea.,KU-KIST Graduate School of Converging Science and Technology, Korea University, Seoul 02841, Republic of Korea
| | - Batakrishna Jana
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
| | - Myoung-Hwan Park
- Department of Chemistry & Life Science, Sahmyook University, Seoul 01795, Republic of Korea
| | - Sang Kyu Kwak
- Department of Energy Engineering, School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulsan 44919, Republic of Korea
| | - Chaekyu Kim
- Fusion Biotechnology, Inc., Ulsan 44919, Republic of Korea
| | - Ja-Hyoung Ryu
- Department of Chemistry, School of Natural Sciences, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
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35
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Wilcken R, Gerwien A, Huber LA, Dube H, Riedle E. Quantitative
In‐Situ
NMR Illumination for Excitation and Kinetic Analysis of Molecular Motor Intermediates. CHEMPHOTOCHEM 2022. [DOI: 10.1002/cptc.202100232] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Roland Wilcken
- Lehrstuhl für BioMolekulare Optik Ludwig-Maximilians-Universität München Oettingenstr. 67 80538 München Germany
- Chair of Organic Chemistry I Friedrich-Alexander-Universität Erlangen-Nürnberg Department of Chemistry and Pharmacy Nikolaus-Fiebiger-Str. 10 91058 Erlangen Germany
| | - Aaron Gerwien
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 (Haus F) 81377 München Germany
| | - Ludwig Alexander Huber
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 (Haus F) 81377 München Germany
| | - Henry Dube
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 (Haus F) 81377 München Germany
- Chair of Organic Chemistry I Friedrich-Alexander-Universität Erlangen-Nürnberg Department of Chemistry and Pharmacy Nikolaus-Fiebiger-Str. 10 91058 Erlangen Germany
| | - Eberhard Riedle
- Lehrstuhl für BioMolekulare Optik Ludwig-Maximilians-Universität München Oettingenstr. 67 80538 München Germany
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36
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Findlay JA, Ross DAW, Crowley JD. Ferrocene Rotary Switches Featuring 2‐Pyridyl‐1,2,3‐triazole “Click” Chelates. Eur J Inorg Chem 2022. [DOI: 10.1002/ejic.202100948] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- James A. Findlay
- Department of Chemistry University of Otago Dunedin 9054 New Zealand
- MacDiarmid Institute for Advanced Materials and Nanotechnology Wellington 6140 New Zealand
| | - Daniel A. W. Ross
- Department of Chemistry University of Otago Dunedin 9054 New Zealand
- MacDiarmid Institute for Advanced Materials and Nanotechnology Wellington 6140 New Zealand
| | - James D. Crowley
- Department of Chemistry University of Otago Dunedin 9054 New Zealand
- MacDiarmid Institute for Advanced Materials and Nanotechnology Wellington 6140 New Zealand
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37
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Gauthier M, Coutrot F. Weinreb Amide, Ketone and Amine as Potential and Competitive Secondary Molecular Stations for Dibenzo-[24]Crown-8 in [2]Rotaxane Molecular Shuttles. Chemistry 2021; 27:17576-17580. [PMID: 34738683 DOI: 10.1002/chem.202103805] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Indexed: 01/05/2023]
Abstract
This paper reports the synthesis and study of new pH-sensitive DB24C8-based [2]rotaxane molecular shuttles that contain within their axle four potential sites of interaction for the DB24C8: ammonium, amine, Weinreb amide, and ketone. In the protonated state, the DB24C8 lay around the best ammonium site. After either deprotonation or deprotonation-then-carbamoylation of the ammonium, different localizations of the DB24C8 were seen, depending on both the number and nature of the secondary stations and steric restriction. Unexpectedly, the results indicated that the Weinreb amide was not a proper secondary molecular station for the DB24C8. Nevertheless, through its methoxy side chain, it slowed down the shuttling of the macrocycle along the threaded axle, thereby partitioning the [2]rotaxane into two translational isomers on the NMR timescale. The ketone was successfully used as a secondary molecular station, and its weak affinity for the DB24C8 was similar to that of a secondary amine.
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Affiliation(s)
- Maxime Gauthier
- Supramolecular Machines and Architectures Team, IBMM, Univ Montpellier, CNRS, ENSCM, Montpellier, France
| | - Frédéric Coutrot
- Supramolecular Machines and Architectures Team, IBMM, Univ Montpellier, CNRS, ENSCM, Montpellier, France
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38
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A nanoscale reciprocating rotary mechanism with coordinated mobility control. Nat Commun 2021; 12:7138. [PMID: 34880226 PMCID: PMC8654862 DOI: 10.1038/s41467-021-27230-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2021] [Accepted: 11/05/2021] [Indexed: 12/17/2022] Open
Abstract
Biological molecular motors transform chemical energy into mechanical work by coupling cyclic catalytic reactions to large-scale structural transitions. Mechanical deformation can be surprisingly efficient in realizing such coupling, as demonstrated by the F1FO ATP synthase. Here, we describe a synthetic molecular mechanism that transforms a rotary motion of an asymmetric camshaft into reciprocating large-scale transitions in a surrounding stator orchestrated by mechanical deformation. We design the mechanism using DNA origami, characterize its structure via cryo-electron microscopy, and examine its dynamic behavior using single-particle fluorescence microscopy and molecular dynamics simulations. While the camshaft can rotate inside the stator by diffusion, the stator's mechanics makes the camshaft pause at preferred orientations. By changing the stator's mechanical stiffness, we accelerate or suppress the Brownian rotation, demonstrating an allosteric coupling between the camshaft and the stator. Our mechanism provides a framework for manufacturing artificial nanomachines that function because of coordinated movements of their components.
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39
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Ross DW, Findlay JA, Vasdev RAS, Crowley JD. Can 2-Pyridyl-1,2,3-triazole "Click" Ligands be Used to Develop Cu(I)/Cu(II) Molecular Switches? ACS OMEGA 2021; 6:30115-30129. [PMID: 34778683 PMCID: PMC8582268 DOI: 10.1021/acsomega.1c04977] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/09/2021] [Accepted: 10/15/2021] [Indexed: 06/13/2023]
Abstract
Molecular switching processes are important in a range of areas including the development of molecular machines. While there are numerous organic switching systems available, there are far less examples that exploit inorganic materials. The most common inorganic switching system remains the copper(I)/copper(II) switch developed by Sauvage and co-workers over 20 years ago. Herein, we examine if bidentate 2-(1-benzyl-1H-1,2,3-triazol-4-yl)pyridine (pytri) and tridentate 2,6-bis[(4-phenyl-1H-1,2,3-triazol-1-yl)methyl]pyridine (tripy) moieties can be used to replace the more commonly exploited polypyridyl ligands 2,2'-bypyridine (bpy)/1,10-phenanthroline (phen) and 2,2';6',2″-terpyridine (terpy) in a copper(I)/(II) switching system. Two new ditopic ligands that feature bidentate (pytri, L1 or bpytri, L2) and tridentate tripy metal binding pockets were synthesized and used to generate a family of heteroleptic copper(I) and copper(II) 6,6'-dimesityl-2,2'-bipyridine (diMesbpy) complexes. Additionally, we synthesized a series of model copper(I) and copper(II) diMesbpy complexes. A combination of techniques including nuclear magnetic resonance (NMR) and UV-vis spectroscopies, high-resolution electrospray ionization mass spectrometry, and X-ray crystallography was used to examine the behavior of the compounds. It was found that L1 and L2 formed [(diMesbpy)Cu(L1 or L2)]2+ complexes where the copper(II) diMesbpy unit was coordinated exclusively in the tridenate tripy binding site. However, when the ligands (L1 and L2) were complexed with copper(I) diMesbpy units, a complex mixture was obtained. NMR and MS data indicated that a 1:1 stoichiometry of [Cu(diMesbpy)]+ and either L1 or L2 generated three complexes in solution, the dimetallic [(diMesbpy)2Cu2(L1 or L2)]2+ and the monometallic [(diMesbpy)Cu(L1 or L2)]+ isomers where the [Cu(diMesbpy)]+ unit is coordinated to either the bidentate or tridentate tripy binding sites of the ditopic ligands. The dimetallic [(diMesbpy)2Cu2(L1 or L2)](PF6)2 complexes were structurally characterized using X-ray crystallography. Both complexes feature a [Cu(diMesbpy)]+ coordinated to the bidentate (pytri or bpytri) pocket of the ditopic ligands (L1 or L2), as expected. They also feature a second [Cu(diMesbpy)]+ coordinated to the nominally tridentate tripy binding site in a four-coordinate hypodentate κ2-fashion. Competition experiments with model complexes showed that the binding strength of the bidentate pytri is similar to that of the κ2-tripy ligand, leading to the lack of selectivity. The results suggest that the pytri/tripy and bpytri/tripy ligand pairs cannot be used as replacements for the more common bpy/phen-terpy partners due to the lack of selectivity in the copper(I) state.
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Affiliation(s)
- Daniel
A. W. Ross
- Department
of Chemistry, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
- MacDiarmid
Institute for Advanced Materials and Nanotechnology, Wellington 6140, New Zealand
| | - James A. Findlay
- Department
of Chemistry, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
- MacDiarmid
Institute for Advanced Materials and Nanotechnology, Wellington 6140, New Zealand
| | - Roan A. S. Vasdev
- Department
of Chemistry, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
- MacDiarmid
Institute for Advanced Materials and Nanotechnology, Wellington 6140, New Zealand
| | - James D. Crowley
- Department
of Chemistry, University of Otago, P.O. Box 56, Dunedin 9054, New Zealand
- MacDiarmid
Institute for Advanced Materials and Nanotechnology, Wellington 6140, New Zealand
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40
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Lopez-Sanchez J, Alajarin M, Pastor A, Berna J. Mechanically Interlocked Profragrances for the Controlled Release of Scents. J Org Chem 2021; 86:15045-15054. [PMID: 34597042 DOI: 10.1021/acs.joc.1c01725] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The synthesis of a series of interlocked profragrances and the study of the controlled release of the corresponding scents are reported. The structures of the profragrances are based on a [2]pseudorotaxane scaffold with a fumaramate thread derived from perfumery alcohols and a tetrabenzylamido ring. The delivery of the scents was accomplished by sequential thermal dethreading and further enzymatic hydrolysis. Alternatively, the dethreading can be achieved by increasing the polarity of the solvent or photochemical isomerization. The temperature of dethreading can be modulated by the steric demand of the ends of the thread, which allows the selection of different precursor structures depending on the desired rates of delivery. The inputs and outputs for the controlled release of the interlocked profragrances correspond to those of YES or AND logic gates.
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Affiliation(s)
- Jorge Lopez-Sanchez
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum", 30100 Murcia, Spain
| | - Mateo Alajarin
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum", 30100 Murcia, Spain
| | - Aurelia Pastor
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum", 30100 Murcia, Spain
| | - Jose Berna
- Department of Organic Chemistry, Faculty of Chemistry, University of Murcia, Regional Campus of International Excellence "Campus Mare Nostrum", 30100 Murcia, Spain
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41
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Das K, Gabrielli L, Prins LJ. Chemically Fueled Self-Assembly in Biology and Chemistry. Angew Chem Int Ed Engl 2021; 60:20120-20143. [PMID: 33704885 PMCID: PMC8453758 DOI: 10.1002/anie.202100274] [Citation(s) in RCA: 135] [Impact Index Per Article: 45.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Revised: 02/12/2021] [Indexed: 12/23/2022]
Abstract
Life is a non-equilibrium state of matter maintained at the expense of energy. Nature uses predominantly chemical energy stored in thermodynamically activated, but kinetically stable, molecules. These high-energy molecules are exploited for the synthesis of other biomolecules, for the activation of biological machinery such as pumps and motors, and for the maintenance of structural order. Knowledge of how chemical energy is transferred to biochemical processes is essential for the development of artificial systems with life-like processes. Here, we discuss how chemical energy can be used to control the structural organization of organic molecules. Four different strategies have been identified according to a distinguishable physical-organic basis. For each class, one example from biology and one from chemistry are discussed in detail to illustrate the practical implementation of each concept and the distinct opportunities they offer. Specific attention is paid to the discussion of chemically fueled non-equilibrium self-assembly. We discuss the meaning of non-equilibrium self-assembly, its kinetic origin, and strategies to develop synthetic non-equilibrium systems.
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Affiliation(s)
- Krishnendu Das
- Department of Chemical Sciences|University of PadovaVia Marzolo 135131PadovaItaly
| | - Luca Gabrielli
- Department of Chemical Sciences|University of PadovaVia Marzolo 135131PadovaItaly
| | - Leonard J. Prins
- Department of Chemical Sciences|University of PadovaVia Marzolo 135131PadovaItaly
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42
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Yu Z, Centola M, Valero J, Matthies M, Šulc P, Famulok M. A Self-Regulating DNA Rotaxane Linear Actuator Driven by Chemical Energy. J Am Chem Soc 2021; 143:13292-13298. [PMID: 34398597 DOI: 10.1021/jacs.1c06226] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Nature-inspired molecular machines can exert mechanical forces by controlling and varying the distance between two molecular subunits in response to different inputs. Here, we present an automated molecular linear actuator composed of T7 RNA polymerase (T7RNAP) and a DNA [2]rotaxane. A T7 promoter region and terminator sequences are introduced into the rotaxane axle to achieve automated and iterative binding and detachment of T7RNAP in a self-controlled fashion. Transcription by T7RNAP is exploited to control the release of the macrocycle from a single-stranded (ss) region in the T7 promoter to switch back and forth from a static state (hybridized macrocycle) to a dynamic state (movable macrocycle). During transcription, the T7RNAP keeps restricting the movement range on the axle available for the interlocked macrocycle and prevents its return to the promotor region. Since this range is continuously depleted as T7RNAP moves along, a directional and active movement of the macrocycle occurs. When it reaches the transcription terminator, the polymerase detaches, and the system can reset as the macrocycle moves back to hybridize again to the ss-promoter docking site. The hybridization is required for the initiation of a new transcription cycle. The rotaxane actuator runs autonomously and repeats these self-controlled cycles of transcription and movement as long as NTP-fuel is available.
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Affiliation(s)
- Ze Yu
- LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121 Bonn, Germany
| | - Mathias Centola
- LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121 Bonn, Germany.,Center of Advanced European Studies and Research, Ludwig-Erhard-Allee 2, 53175 Bonn, Germany
| | - Julián Valero
- LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121 Bonn, Germany.,Interdisciplinary Nanoscience Center - INANO-MBG, iNANO-huset, Gustav Wieds Vej 14, building 1592, 328, 8000 Århus C, Denmark
| | - Michael Matthies
- School of Molecular Sciences and Center for Molecular Design and Biomimetics, The Biodesign Institute, Arizona State University, Tempe, Arizona 85287, United States
| | - Petr Šulc
- School of Molecular Sciences and Center for Molecular Design and Biomimetics, The Biodesign Institute, Arizona State University, Tempe, Arizona 85287, United States
| | - Michael Famulok
- LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121 Bonn, Germany.,Center of Advanced European Studies and Research, Ludwig-Erhard-Allee 2, 53175 Bonn, Germany
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43
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Abstract
Creating artificial macromolecular transport systems that can support the movement of molecules along defined routes is a key goal of nanotechnology. Here, we report the bottom-up construction of a macromolecular transport system in which molecular pistons diffusively move through micrometer-long, hollow filaments. The pistons can cover micrometer distances in fractions of seconds. We build the system using multi-layer DNA origami and analyze the structures of the components using transmission electron microscopy. We study the motion of the pistons along the tubes using single-molecule fluorescence microscopy and perform Langevin simulations to reveal details of the free energy surface that directs the motions of the pistons. The tubular transport system achieves diffusivities and displacement ranges known from natural molecular motors and realizes mobility improvements over five orders of magnitude compared to previous artificial random walker designs. Electric fields can also be employed to actively pull the pistons along the filaments, thereby realizing a nanoscale electric rail system. Our system presents a platform for artificial motors that move autonomously driven by chemical fuels and for performing nanotribology studies, and it could form a basis for future molecular transportation networks. DNA origami can be used to control the movement of nanoscale assemblies. Here the authors construct multiple-micrometer-long hollow DNA filaments through which DNA pistons move with micrometer-per-second speeds.
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44
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Cai K, Zhang L, Astumian RD, Stoddart JF. Radical-pairing-induced molecular assembly and motion. Nat Rev Chem 2021; 5:447-465. [PMID: 37118435 DOI: 10.1038/s41570-021-00283-4] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/16/2021] [Indexed: 12/25/2022]
Abstract
Radical-pairing interactions between conjugated organic π-radicals are relative newcomers to the inventory of molecular recognition motifs explored in supramolecular chemistry. The unique electronic, magnetic, optical and redox-responsive properties of the conjugated π-radicals render molecules designed with radical-pairing interactions useful for applications in various areas of chemistry and materials science. In particular, the ability to control formation of radical cationic or anionic species, by redox stimulation, provides a flexible trigger for directed assembly and controlled molecular motions, as well as a convenient means of inputting energy to fuel non-equilibrium processes. In this Review, we provide an overview of different examples of radical-pairing-based recognition processes and of their emerging use in (1) supramolecular assembly, (2) templation of mechanically interlocked molecules, (3) stimuli-controlled molecular switches and, by incorporation of kinetic asymmetry in the design, (4) the creation of unidirectional molecular transporters based on pumping cassettes powered by fuelled switching of radical-pairing interactions. We conclude the discussion with an outlook on future directions for the field.
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45
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Rémy M, Nierengarten I, Park B, Holler M, Hahn U, Nierengarten J. Pentafluorophenyl Esters as Exchangeable Stoppers for the Construction of Photoactive [2]Rotaxanes. Chemistry 2021; 27:8492-8499. [DOI: 10.1002/chem.202100943] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Indexed: 12/25/2022]
Affiliation(s)
- Marine Rémy
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
| | - Iwona Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
| | - Boram Park
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
| | - Michel Holler
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
| | - Uwe Hahn
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
| | - Jean‐François Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires Université de Strasbourg et CNRS (UMR 7402 LIMA) Ecole Européenne de Chimie, Polymères et Matériaux 25 rue Becquerel 67087 Strasbourg Cedex 2 France
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46
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Hanozin E, Mignolet B, Martens J, Berden G, Sluysmans D, Duwez AS, Stoddart JF, Eppe G, Oomens J, De Pauw E, Morsa D. Radical-Pairing Interactions in a Molecular Switch Evidenced by Ion Mobility Spectrometry and Infrared Ion Spectroscopy. Angew Chem Int Ed Engl 2021; 60:10049-10055. [PMID: 33561311 PMCID: PMC8251753 DOI: 10.1002/anie.202014728] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 02/07/2021] [Indexed: 12/11/2022]
Abstract
The digital revolution sets a milestone in the progressive miniaturization of working devices and in the underlying advent of molecular machines. Foldamers involving mechanically entangled components with modular secondary structures are among the most promising designs for molecular switch‐based applications. Characterizing the nature and dynamics of their intramolecular network following the application of a stimulus is the key to their performance. Here, we use non‐dissociative electron transfer as a reductive stimulus in the gas phase and probe the consecutive co‐conformational transitions of a donor‐acceptor oligorotaxane foldamer using electrospray mass spectrometry interfaced with ion mobility and infrared ion spectroscopy. A comparison of collision cross section distributions for analogous closed‐shell and radical molecular ions sheds light on their respective formation energetics, while variations in their respective infrared absorption bands evidence changes in intramolecular organization as the foldamer becomes more compact. These differences are compatible with the advent of radical‐pairing interactions.
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Affiliation(s)
- Emeline Hanozin
- Mass Spectrometry Laboratory, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - Benoit Mignolet
- Theoretical Physical Chemistry, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - Jonathan Martens
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7, 6525, ED, Nijmegen, The Netherlands
| | - Giel Berden
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7, 6525, ED, Nijmegen, The Netherlands
| | - Damien Sluysmans
- NanoChemistry and Molecular Systems, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - Anne-Sophie Duwez
- NanoChemistry and Molecular Systems, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - J Fraser Stoddart
- Department of Chemistry, Northwestern University, Evanston, IL, 60208, USA.,Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China.,ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 311215, China.,School of Chemistry, University of New South Wales, Sydney, NSW, 2052, Australia
| | - Gauthier Eppe
- Mass Spectrometry Laboratory, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - Jos Oomens
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7, 6525, ED, Nijmegen, The Netherlands.,van't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 908, 1098XH, Amsterdam, The Netherlands
| | - Edwin De Pauw
- Mass Spectrometry Laboratory, UR MolSys, University of Liège, 4000, Liège, Belgium
| | - Denis Morsa
- Mass Spectrometry Laboratory, UR MolSys, University of Liège, 4000, Liège, Belgium.,Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7, 6525, ED, Nijmegen, The Netherlands
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47
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Hanozin E, Mignolet B, Martens J, Berden G, Sluysmans D, Duwez A, Stoddart JF, Eppe G, Oomens J, De Pauw E, Morsa D. Radical‐Pairing Interactions in a Molecular Switch Evidenced by Ion Mobility Spectrometry and Infrared Ion Spectroscopy. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202014728] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Emeline Hanozin
- Mass Spectrometry Laboratory UR MolSys University of Liège 4000 Liège Belgium
| | - Benoit Mignolet
- Theoretical Physical Chemistry UR MolSys University of Liège 4000 Liège Belgium
| | - Jonathan Martens
- Institute for Molecules and Materials FELIX Laboratory Radboud University Toernooiveld 7 6525 ED Nijmegen The Netherlands
| | - Giel Berden
- Institute for Molecules and Materials FELIX Laboratory Radboud University Toernooiveld 7 6525 ED Nijmegen The Netherlands
| | - Damien Sluysmans
- NanoChemistry and Molecular Systems UR MolSys University of Liège 4000 Liège Belgium
| | - Anne‐Sophie Duwez
- NanoChemistry and Molecular Systems UR MolSys University of Liège 4000 Liège Belgium
| | - J. Fraser Stoddart
- Department of Chemistry Northwestern University Evanston IL 60208 USA
- Stoddart Institute of Molecular Science Department of Chemistry Zhejiang University Hangzhou 310027 China
- ZJU-Hangzhou Global Scientific and Technological Innovation Center Hangzhou 311215 China
- School of Chemistry University of New South Wales Sydney NSW 2052 Australia
| | - Gauthier Eppe
- Mass Spectrometry Laboratory UR MolSys University of Liège 4000 Liège Belgium
| | - Jos Oomens
- Institute for Molecules and Materials FELIX Laboratory Radboud University Toernooiveld 7 6525 ED Nijmegen The Netherlands
- van't Hoff Institute for Molecular Sciences University of Amsterdam Science Park 908 1098XH Amsterdam The Netherlands
| | - Edwin De Pauw
- Mass Spectrometry Laboratory UR MolSys University of Liège 4000 Liège Belgium
| | - Denis Morsa
- Mass Spectrometry Laboratory UR MolSys University of Liège 4000 Liège Belgium
- Institute for Molecules and Materials FELIX Laboratory Radboud University Toernooiveld 7 6525 ED Nijmegen The Netherlands
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48
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Abstract
The design of molecular architectures exhibiting functional motions is a promising area for disruptive technological development. Toward this goal, rotaxanes and catenanes, which undergo relative motions of their subunits in response to external stimuli, are prime candidates. Here, we report on the computational analysis of the contraction/extension of a bistable [c2]daisy chain rotaxane. Using free-energy calculations and transition path optimizations, we explore the free-energy landscape governing the functional motions of a prototypical molecular machine with atomic resolution. The calculations reveal a sequential mechanism in which the asynchronous gliding of each ring is preferred over the concerted movement. Analysis of the underlying free-energy surface indicates that the formation of partially rearranged intermediates entails crossing of much smaller barriers. Our findings illustrate an important design principle for molecular machines, namely that efficient exploitation of thermal fluctuations may be realized by breaking down the large-scale functional motions into smaller steps.
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Affiliation(s)
- Florian E Blanc
- Laboratoire d'Ingénierie des Fonctions Moléculaires, Institut de Chimie de Strasbourg, UMR 7177 CNRS, Université de Strasbourg, F-67083 Strasbourg Cedex, France
| | - Marco Cecchini
- Laboratoire d'Ingénierie des Fonctions Moléculaires, Institut de Chimie de Strasbourg, UMR 7177 CNRS, Université de Strasbourg, F-67083 Strasbourg Cedex, France
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49
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Das K, Gabrielli L, Prins LJ. Chemically Fueled Self‐Assembly in Biology and Chemistry. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202100274] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Krishnendu Das
- Department of Chemical Sciences
- University of Padova Via Marzolo 1 35131 Padova Italy
| | - Luca Gabrielli
- Department of Chemical Sciences
- University of Padova Via Marzolo 1 35131 Padova Italy
| | - Leonard J. Prins
- Department of Chemical Sciences
- University of Padova Via Marzolo 1 35131 Padova Italy
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50
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Joseph T, V K. Efficiency estimation for an equilibrium version of the Maxwell refrigerator. Phys Rev E 2021; 103:022131. [PMID: 33735980 DOI: 10.1103/physreve.103.022131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Accepted: 01/27/2021] [Indexed: 11/07/2022]
Abstract
Maxwell refrigerator as a device that can transfer heat from a cold to hot temperature reservoir making use of information reservoir was introduced by Mandal et al. [Phys. Rev. Lett. 111, 030602 (2013)PRLTAO0031-900710.1103/PhysRevLett.111.030602]. The model has a two-state demon and a bit stream interacting with two thermal reservoirs simultaneously. We work out a simpler version of the refrigerator where the demon and bit system interact with the reservoirs separately and for a duration long enough to establish equilibrium. The efficiency, η, of the device when working as an engine as well as the coefficient of performance (COP) when working as a refrigerator are calculated. It is shown that the maximum efficiency matches that of a Carnot engine/refrigerator working between the same temperatures, as expected. The COP, when cooling per cycle is a maximum, decreases as 1/T_{h} when T_{h}>T_{c}≫ΔE (k_{B}=1), where T_{h} and T_{c} are the temperatures of the hot and cold reservoirs, respectively, and ΔE is the level spacing of the demon. η, when work per cycle is a maximum, is found to be T_{h}/0.779+T_{h} when T_{c}≪ΔE and T_{h}≫ΔE.
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Affiliation(s)
- Toby Joseph
- Department of Physics, BITS Pilani K K Birla Goa Campus, Zuarinagar 403726, Goa, India
| | - Kiran V
- Department of Physics, BITS Pilani K K Birla Goa Campus, Zuarinagar 403726, Goa, India
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