1
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Ranganath VA, Maity I. Artificial Homeostasis Systems Based on Feedback Reaction Networks: Design Principles and Future Promises. Angew Chem Int Ed Engl 2024; 63:e202318134. [PMID: 38226567 DOI: 10.1002/anie.202318134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 01/15/2024] [Accepted: 01/16/2024] [Indexed: 01/17/2024]
Abstract
Feedback-controlled chemical reaction networks (FCRNs) are indispensable for various biological processes, such as cellular mechanisms, patterns, and signaling pathways. Through the intricate interplay of many feedback loops (FLs), FCRNs maintain a stable internal cellular environment. Currently, creating minimalistic synthetic cells is the long-term objective of systems chemistry, which is motivated by such natural integrity. The design, kinetic optimization, and analysis of FCRNs to exhibit functions akin to those of a cell still pose significant challenges. Indeed, reaching synthetic homeostasis is essential for engineering synthetic cell components. However, maintaining homeostasis in artificial systems against various agitations is a difficult task. Several biological events can provide us with guidelines for a conceptual understanding of homeostasis, which can be further applicable in designing artificial synthetic systems. In this regard, we organize our review with artificial homeostasis systems driven by FCRNs at different length scales, including homogeneous, compartmentalized, and soft material systems. First, we stretch a quick overview of FCRNs in different molecular and supramolecular systems, which are the essential toolbox for engineering different nonlinear functions and homeostatic systems. Moreover, the existing history of synthetic homeostasis in chemical and material systems and their advanced functions with self-correcting, and regulating properties are also emphasized.
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Affiliation(s)
- Vinay Ambekar Ranganath
- Centre for Nano and Material Sciences, Jain (Deemed-to-be University), Jain Global Campus, Bangalore, 562112, Karnataka, India
| | - Indrajit Maity
- Centre for Nano and Material Sciences, Jain (Deemed-to-be University), Jain Global Campus, Bangalore, 562112, Karnataka, India
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2
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Mendizabal F, Ceron ML, Lara D, Miranda-Rojas S. Closed-shell d 10-d 10 mechanochromic [AuPh(CNPh)] n complex: quantum chemistry electronic and optical properties. RSC Adv 2024; 14:5638-5647. [PMID: 38352689 PMCID: PMC10863605 DOI: 10.1039/d3ra08935e] [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: 12/29/2023] [Accepted: 01/31/2024] [Indexed: 02/16/2024] Open
Abstract
The electronic structure, spectroscopic properties, and solid state chemistry of monomer and dimers of [AuPh(CNPh)] complex were studied at post-Hartree-Fock (MP2, SCS-MP2, and CC2) and density functional theory levels. The absorption spectra of these complexes were calculated using single excitation time-dependent (TD) methods at DFT, CC2, and SCS-CC2 levels. The influences of the bulk are accounted for at the PBE-D3 level, incorporating dispersion effects. The calculated values agree with the experimental range, where absorption and emission energies reproduce experimental trends with large Stokes shifts. The aurophilic interaction is identified as a key factor influencing the spectroscopic and structural properties of these complexes. The intermetallic interactions were found as the main factor responsible for MMCT electronic transitions in the models studied.
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Affiliation(s)
- Fernando Mendizabal
- Departamento de Química, Facultad de Ciencias, Universidad de Chile Casilla 653 Santiago Chile
| | - María Luisa Ceron
- Facultad de Ingeniería, Universidad Finis Terrae Av. Pedro de Valdivia 1509, Providencia Santiago Chile
| | - Dina Lara
- Departamento de Química, Facultad de Ciencias, Universidad de Chile Casilla 653 Santiago Chile
| | - Sebastián Miranda-Rojas
- Departamento de Ciencias Químicas, Facultad de Ciencias Exactas, Universidad Andrés Bello Avenida República 275 Santiago Chile
- Universidad Andrés Bello, Centro de Química Teórica & Computacional (CQT&C), Facultad de Ciencias Exactas, Departamento de Ciencias Químicas Avenida República 275 8370146 Santiago de Chile Chile
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3
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Jiang R, Nilam M, Hennig A, Nau WM. Dual-Color Real-Time Chemosensing of a Compartmentalized Reaction Network Involving Enzyme-Induced Membrane Permeation of Peptides. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024; 36:e2306922. [PMID: 37703578 DOI: 10.1002/adma.202306922] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Revised: 09/04/2023] [Indexed: 09/15/2023]
Abstract
The design of synthetic systems with interrelated reaction sequences that model incipient biological complexity is limited by physicochemical tools that allow the direct monitoring of the individual processes in real-time. To mimic a simple digestion-resorption sequence, the authors have designed compartmentalized liposomal systems that incorporate extra- and intravesicular chemosensing ensembles. The extravesicular reporter pair consists of cucurbit[7]uril and methylene blue to monitor the enzymatic cleavage of short enkephalin-related peptides by thermolysin through a switch-off fluorescence response ("digestion"). Because the substrate is membrane-impermeable, but the dipeptide product is permeable, uptake of the latter into the pre-formed liposomes occurs as a follow-up process. The intravesicular chemosensing ensemble consists of i) cucurbit[8]uril, 2-anilinonaphthalene-6-sulfonic acid, and methyl viologen or ii) cucurbit[7]uril and berberine to monitor the uptake ("resorption") of the enzymatic products through the liposomal membranes by i) a switch-on or ii) a switch-off fluorescence response. The dyes are designed to allow selective optical excitation and read-out of the extra- and intravesicular dyes, which allow for dual-color chemosensing and, therefore, kinetic discrimination of the two sequential reactions.
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Affiliation(s)
- Ruixue Jiang
- School of Science, Constructor University, Campus Ring 1, 28759, Bremen, Germany
| | - Mohamed Nilam
- Center for Cellular Nanoanalytics (CellNanOs), Department of Biology and Chemistry, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
| | - Andreas Hennig
- Center for Cellular Nanoanalytics (CellNanOs), Department of Biology and Chemistry, Universität Osnabrück, Barbarastraße 7, 49069, Osnabrück, Germany
| | - Werner M Nau
- School of Science, Constructor University, Campus Ring 1, 28759, Bremen, Germany
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4
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You L. Dual reactivity based dynamic covalent chemistry: mechanisms and applications. Chem Commun (Camb) 2023; 59:12943-12958. [PMID: 37772969 DOI: 10.1039/d3cc04022d] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/30/2023]
Abstract
Dynamic covalent chemistry (DCC) focuses on the reversible formation, breakage, and exchange of covalent bonds and assemblies, setting a bridge between irreversible organic synthesis and supramolecular chemistry and finding wide utility. In order to enhance structural and functional diversity and complexity, different types of dynamic covalent reactions (DCRs) are placed in one vessel, encompassing orthogonal DCC without crosstalk and communicating DCC with a shared reactive functional group. As a means of adding tautomers, widespread in chemistry, to interconnected DCRs and combining the features of orthogonal and communicating DCRs, a concept of dual reactivity based DCC and underlying structural and mechanistic insights are summarized. The manipulation of the distinct reactivity of structurally diverse ring-chain tautomers allows selective activation and switching of reaction pathways and corresponding DCRs (C-N, C-O, and C-S) and assemblies. The coupling with photoswitches further enables light-mediated formation and scission of multiple types of reversible covalent bonds. To showcase the capability of dual reactivity based DCC, the versatile applications in dynamic polymers and luminescent materials are presented, paving the way for future functionalization studies.
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Affiliation(s)
- Lei You
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.
- University of Chinese Academy of Sciences, Beijing 100049, China
- Fujian Science & Technology Innovation Laboratory for Optoelectronic Information of China, Fuzhou 350108, China
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5
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Lara D, Santibañez D, Miranda-Rojas S, Mendizabal F. Is there a Covalent Au(I)-Au(I) Bond in the trans-(AuX) 2 (X = F, Cl, Br, I) Structure? A Post-Hartree-Fock and Density Functional Theory Study. Inorg Chem 2023; 62:15421-15431. [PMID: 37690083 DOI: 10.1021/acs.inorgchem.3c01547] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/12/2023]
Abstract
We present an exhaustive exploration of the driving forces dominating the interaction between gold atoms in the trans-(AuX)2, where X is a halogen ligand. This work provides insights into the nature of the gold-gold contact in the trans-(AuX)2. The geometries and energies were calculated at the MP2, CCSD(T), and DFT-D3(BJ) (B3LYP, PBE, and TPSS) levels of theory. The results show a short Au-Au distance, typical of a covalent bond, but with a weak interaction energy associated with noncovalent interactions. It is established that the physical contributions from polarization and the electronic correlation forces are the most relevant at the post-Hartree-Fock level of theory. Also, the electrostatic term is attractive but with low contribution. Finally, the Wiberg indices and NBO analysis exposed a small covalent character between the gold atoms, revealing that this contribution is insufficient to explain the stability of the dimers. It is concluded that a sum of contributions makes it possible to establish an attraction between the gold atoms in the dimers studied beyond a classical aurophilic interaction.
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Affiliation(s)
- Dina Lara
- Departamento de Químicas, Facultad de Ciencias, Universidad de Chile, Casilla, 653 Santiago, Chile
| | - Daniel Santibañez
- Departamento de Químicas, Facultad de Ciencias, Universidad de Chile, Casilla, 653 Santiago, Chile
| | - Sebastián Miranda-Rojas
- Departamento de Ciencias Químicas, Facultad de Ciencias Exactas, Universidad Andrés Bello, Avenida República 275, 8370146 Santiago, Chile
- Centro de Química Teórica & Computacional (CQT&C), Facultad de Ciencias Exactas, Departamento de Ciencias Químicas, Universidad Andrés Bellos, Avenida República 275, 8370146 Santiago de Chile, Chile
| | - Fernando Mendizabal
- Departamento de Químicas, Facultad de Ciencias, Universidad de Chile, Casilla, 653 Santiago, Chile
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6
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Yang Z, Esteve F, Antheaume C, Lehn JM. Dynamic covalent self-assembly and self-sorting processes in the formation of imine-based macrocycles and macrobicyclic cages. Chem Sci 2023; 14:6631-6642. [PMID: 37350816 PMCID: PMC10284075 DOI: 10.1039/d3sc01174g] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2023] [Accepted: 05/25/2023] [Indexed: 06/24/2023] Open
Abstract
Investigating the self-assembly and self-sorting behaviour of dynamic covalent organic architectures makes possible the parallel generation of multiple discrete products in a single one pot procedure. We here report the self-assembly of covalent organic macrocycles and macrobicyclic cages from dialdehyde and polyamine components via multiple [2 + 2] and [3 + 2] polyimine condensations. Furthermore, component self-sorting processes have been monitored within the dynamic covalent libraries formed by these macrocycles and macrobicyclic cages. The progressive assembly of the final structures involves intermediates which undergo component selection and self-correction to generate the final thermodynamic constituents. The homo-self-sorting observed seems to involve entropic factors, as the homoleptic species present a higher symmetry than the competing heteroleptic ones. This study not only emphasizes the importance of an adequate design of the components of complex self-sorting systems, but also verifies the conjecture that systems of higher complexity may generate simpler outputs through the operation of competitive self-sorting.
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Affiliation(s)
- Zhaozheng Yang
- Lehn Institute of Functional Materials (LIFM), Sun Yat-Sen University 510006 Guangzhou China
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge 67000 Strasbourg France
| | - Ferran Esteve
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge 67000 Strasbourg France
| | - Cyril Antheaume
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge 67000 Strasbourg France
| | - Jean-Marie Lehn
- Lehn Institute of Functional Materials (LIFM), Sun Yat-Sen University 510006 Guangzhou China
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge 67000 Strasbourg France
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7
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Mauksch M. Spontaneous emergence of enantioenriched chiral aldol reaction products from Achiral precursors in solution and origin of biological homochirality of sugars: a first-principles study. Phys Chem Chem Phys 2023; 25:1734-1754. [PMID: 36594779 DOI: 10.1039/d2cp04285a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Experimental reports about observation of spontaneous mirror symmetry breaking and chiral amplification in stereoselective Mannich and aldol reactions, run under fully achiral initial conditions, have drawn a lot of attention, fuelled partly by the role these reactions could have played in chemical evolution as a cause for still puzzling observed homochirality of biomolecules, often considered a prerequisite for the origin of life. We have now revisited this still unresolved problem, using DFT computation of all combinatorially possible transition states and numerical solution of complete set of resulting coupled kinetic rate equations to model the aldol reaction rigorously "from the first principles" and without making any a priori assumptions. Spontaneous mirror symmetry breaking in this autocatalytic, reversible, closed and homogenous system is explained by a supercritical pitchfork bifurcation, occurring in concentrations of enantiomers due to time-delayed kinetic instability of racemic composition of reaction mixture, when reactants are initially provided in non-stoichiometric quantities. Same process, taking place under similar conditions in primordial "soup" of chemicals, might conceivably explain origin of biological homochirality of sugar molecules on early earth billions of years ago. Our results suggest that seemingly innocuous chemical reactions could exhibit unexpected and counter-intuitive emergent behaviour, when initial conditions are appropriately chosen. Chiral amplification in self-catalyzed aldol reaction occurs during approach of thermodynamic equilibrium in accord with principle of microscopic reversibility and second law of thermodynamics.
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Affiliation(s)
- Michael Mauksch
- Department of Chemistry and Pharmacy, Institute of Theoretical Chemistry, Computer Chemistry Center, Nägelsbachstrasse 25a, 91052 Erlangen, Germany.
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8
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Gorai A, Chakraborti G, Basak SJ, Dash J. Diastereoselective reversible C-C bond exchange of oxindole-thiazolidienediones for dynamic combinatorial chemistry. Org Biomol Chem 2022; 20:9307-9312. [PMID: 36399158 DOI: 10.1039/d2ob01993k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
We herein describe a diastereoselective aldol exchange involving isatins and thiazolidinediones, providing oxindolyl-thiazolidienediones in aqueous media at pH 6. This equilibrium can also be achieved with oxindole exchange as well as cross-exchange within reasonable timescales. These metal and organic catalyst free reversible reactions provide a unique opportunity for the evolution of dynamic combinatorial libraries (DCLs) for target directed dynamic combinatorial chemistry (DCC) and system chemistry.
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Affiliation(s)
- Ananta Gorai
- School of Chemical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata-700032, India.
| | - Gargi Chakraborti
- School of Chemical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata-700032, India.
| | - Soumya Jyoti Basak
- School of Chemical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata-700032, India.
| | - Jyotirmayee Dash
- School of Chemical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata-700032, India.
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9
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She Z, Zou H, You L. Tuning the selectivity of amino acid recognition with dynamic covalent bond constrained fluorophores in aqueous media. Org Biomol Chem 2022; 20:6897-6904. [PMID: 35972458 DOI: 10.1039/d2ob01361d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The recognition and discrimination of amino acids are generating continuous interest due to their importance. Herein we developed a series of dynamic covalent reaction constrained aldehyde-derived fluorescent probes for the binding of amino acids with tunable selectivity. Diverse emission behaviors were obtained via pH triggered movement of ring-chain tautomerization equilibrium of aldehyde probes. By taking advantage of the distinct pKa and reactivity of aldehyde probes and amino acids, unique fluorescence signaling patterns were generated, and the selectivity for amino acid recognition was further modulated. The selective recognition of Cys/Hcy was attained at pH 7.4 as a result of thiazolidine formation. The manipulation of the reactivity at pH 10 enabled the realization of high selectivity for His and Cys, respectively. Moreover, pH and redox stimuli-responsive dynamic covalent networks were constructed for the regulation of amino acid recognition. The strategies and results described should be appealing in many aspects, including dynamic assemblies, molecular sensing, biological labeling, and smart materials.
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Affiliation(s)
- Zijian She
- College of Chemistry and Material Science, Fujian Normal University, Fuzhou 350007, China.,State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.
| | - Hanxun Zou
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.
| | - Lei You
- College of Chemistry and Material Science, Fujian Normal University, Fuzhou 350007, China.,State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China. .,Fujian Science & Technology Innovation Laboratory for Optoelectronic Information of China, Fuzhou 350108, China
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10
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Borodin O, Shchukin Y, Schmid J, von Delius M. Anion-assisted amidinium exchange and metathesis. Chem Commun (Camb) 2022; 58:10178-10181. [PMID: 35997205 PMCID: PMC9469691 DOI: 10.1039/d2cc03425e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Dynamic covalent chemistry has become an invaluable tool for the design and preparation of adaptable yet robust molecular systems. Herein we explore the scope of a largely overlooked dynamic covalent reaction – amidinium exchange – and report on conditions that allow formal amidinium metathesis reactions. In this article, we explore the scope of a largely overlooked dynamic covalent reaction – amidinium exchange – and report on conditions that allow formal amidinium metathesis reactions.![]()
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Affiliation(s)
- Oleg Borodin
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany.
| | - Yevhenii Shchukin
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany.
| | - Jonas Schmid
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany.
| | - Max von Delius
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany.
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11
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Englert A, Vogel JF, Bergner T, Loske J, von Delius M. A Ribonucleotide ↔ Phosphoramidate Reaction Network Optimized by Computer-Aided Design. J Am Chem Soc 2022; 144:15266-15274. [PMID: 35953065 PMCID: PMC9413217 DOI: 10.1021/jacs.2c05861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022]
Abstract
![]()
A growing number of out-of-equilibrium systems have been
created
and investigated in chemical laboratories over the past decade. One
way to achieve this is to create a reaction cycle, in which the forward
reaction is driven by a chemical fuel and the backward reaction follows
a different pathway. Such dissipative reaction networks are still
relatively rare, however, and most non-enzymatic examples are based
on the carbodiimide-driven generation of carboxylic acid anhydrides.
In this work, we describe a dissipative reaction network that comprises
the chemically fueled formation of phosphoramidates from natural ribonucleotides
(e.g., GMP or AMP) and phosphoramidate hydrolysis as a mild backward
reaction. Because the individual reactions are subject to a multitude
of interconnected parameters, the software-assisted tool “Design
of Experiments” (DoE) was a great asset for optimizing and
understanding the network. One notable insight was the stark effect
of the nucleophilic catalyst 1-ethylimidazole (EtIm) on the hydrolysis
rate, which is reminiscent of the action of the histidine group in
phosphoramidase enzymes (e.g., HINT1). We were also able to use the
reaction cycle to generate transient self-assemblies, which were characterized
by dynamic light scattering (DLS), confocal microscopy (CLSM), and
cryogenic transmission electron microscopy (cryo-TEM). Because these
compartments are based on prebiotically plausible building blocks,
our findings may have relevance for origin-of-life scenarios.
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Affiliation(s)
- Andreas Englert
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Julian F Vogel
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Tim Bergner
- Central Facility for Electron Microscopy, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Jessica Loske
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Max von Delius
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
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12
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Shear TA, Mayhugh JT, Zocchi LJ, Demachkie IS, Trubinstein HJ, Zakharov LN, Johnson DW. Expanding the Scope of Pnictogen‐Assisted Cyclophane Self‐Assembly. European J Org Chem 2022. [DOI: 10.1002/ejoc.202200056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | | | - Luca J. Zocchi
- University of Oregon Chemistry & Biochemistry UNITED STATES
| | | | | | | | - Darren William Johnson
- University of Oregon Department of Chemistry 1253 University of Oregon 97403-1253 Eugene UNITED STATES
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13
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Closs AC, Bechtel M, Trapp O. Dynamischer Austausch von Substituenten in einem präbiotischen Organokatalysator: Erste Schritte auf dem Weg zu einem evolutionären System. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202112563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Anna C. Closs
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
- Max-Planck-Institut für Astronomie Königstuhl 17 69117 Heidelberg Deutschland
| | - Maximilian Bechtel
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
| | - Oliver Trapp
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
- Max-Planck-Institut für Astronomie Königstuhl 17 69117 Heidelberg Deutschland
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14
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Mendizabal F, Miranda-Rojas S. Closed-shell d 10–d 10 in [AuCl(CNR)] n and [AuCl(CO)] n ( n = 1, 2; R = –H, –CH 3, –Cy) complexes: quantum chemistry study of their electronic and optical properties. RSC Adv 2022; 12:7516-7528. [PMID: 35424682 PMCID: PMC8982242 DOI: 10.1039/d1ra07269b] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Accepted: 02/21/2022] [Indexed: 11/21/2022] Open
Abstract
The [AuCl(CNR)] and [AuCl(CO)] (R = –H, –CH3, –Cy) complexes were modeled and their electronic and optical properties described.
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Affiliation(s)
- Fernando Mendizabal
- Departamento de Química, Facultad de Ciencias, Universidad de Chile, Casilla 653, Santiago, Chile
| | - Sebastián Miranda-Rojas
- Departamento de Ciencias Químicas, Facultad de Ciencias Exactas, Universidad Andres Bello, Avenida República 275, Santiago, Chile
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15
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Closs AC, Bechtel M, Trapp O. Dynamic Exchange of Substituents in a Prebiotic Organocatalyst: Initial Steps towards an Evolutionary System. Angew Chem Int Ed Engl 2021; 61:e202112563. [PMID: 34705315 PMCID: PMC9298921 DOI: 10.1002/anie.202112563] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Indexed: 11/07/2022]
Abstract
All evolutionary biological processes lead to a change in heritable traits over successive generations. The responsible genetic information encoded in DNA is altered, selected, and inherited by mutation of the base sequence. While this is well known at the biological level, an evolutionary change at the molecular level of small organic molecules is unknown but represents an important prerequisite for the emergence of life. Here, we present a class of prebiotic imidazolidine-4-thione organocatalysts able to dynamically change their constitution and potentially capable to form an evolutionary system. These catalysts functionalize their building blocks and dynamically adapt to their (self-modified) environment by mutation of their own structure. Depending on the surrounding conditions, they show pronounced and opposing selectivity in their formation. Remarkably, the preferentially formed species can be associated with different catalytic properties, which enable multiple pathways for the transition from abiotic matter to functional biomolecules.
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Affiliation(s)
- Anna C Closs
- Department of Chemistry, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany.,Max-Planck-Institute for Astronomy, Königstuhl 17, 69117, Heidelberg, Germany
| | - Maximilian Bechtel
- Department of Chemistry, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Oliver Trapp
- Department of Chemistry, Ludwig-Maximilians-University Munich, Butenandtstr. 5-13, 81377, Munich, Germany.,Max-Planck-Institute for Astronomy, Königstuhl 17, 69117, Heidelberg, Germany
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16
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Borodin O, Shchukin Y, Robertson CC, Richter S, von Delius M. Self-Assembly of Stimuli-Responsive [2]Rotaxanes by Amidinium Exchange. J Am Chem Soc 2021; 143:16448-16457. [PMID: 34559523 PMCID: PMC8517971 DOI: 10.1021/jacs.1c05230] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Indexed: 01/29/2023]
Abstract
Advances in supramolecular chemistry are often underpinned by the development of fundamental building blocks and methods enabling their interconversion. In this work, we report the use of an underexplored dynamic covalent reaction for the synthesis of stimuli-responsive [2]rotaxanes. The formamidinium moiety lies at the heart of these mechanically interlocked architectures, because it enables both dynamic covalent exchange and the binding of simple crown ethers. We demonstrated that the rotaxane self-assembly follows a unique reaction pathway and that the complex interplay between crown ether and thread can be controlled in a transient fashion by addition of base and fuel acid. Dynamic combinatorial libraries, when exposed to diverse nucleophiles, revealed a profound stabilizing effect of the mechanical bond as well as intriguing reactivity differences between seemingly similar [2]rotaxanes.
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Affiliation(s)
- Oleg Borodin
- Institute
of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Yevhenii Shchukin
- Institute
of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Craig C. Robertson
- Department
of Chemistry, University of Sheffield, Brook Hill, Sheffield S3 7HF, U.K.
| | - Stefan Richter
- Institute
of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Max von Delius
- Institute
of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm, Germany
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17
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Kravchenko A, Timmer BJJ, Inge AK, Biedermann M, Ramström O. Stable CAAC‐based Ruthenium Complexes for Dynamic Olefin Metathesis Under Mild Conditions. ChemCatChem 2021. [DOI: 10.1002/cctc.202101172] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Alexander Kravchenko
- Department of Chemistry KTH – Royal Institute of Technology Teknikringen 36 S-10044 Stockholm Sweden
| | - Brian J. J. Timmer
- Department of Chemistry KTH – Royal Institute of Technology Teknikringen 36 S-10044 Stockholm Sweden
| | - A. Ken Inge
- Stockholm University Department of Materials and Environmental Chemistry Svante Arrhenius väg 16 C S-10691 Stockholm Sweden
| | - Maurice Biedermann
- Department of Chemistry KTH – Royal Institute of Technology Teknikringen 36 S-10044 Stockholm Sweden
| | - Olof Ramström
- Department of Chemistry KTH – Royal Institute of Technology Teknikringen 36 S-10044 Stockholm Sweden
- Department of Chemistry University of Massachusetts Lowell One University Ave. Lowell MA 01854 USA
- Department of Chemistry and Biomedical Sciences Linnaeus University SE-39182 Kalmar Sweden
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18
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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: 125] [Impact Index Per Article: 41.7] [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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19
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Santos T, Rivero DS, Pérez‐Pérez Y, Martín‐Encinas E, Pasán J, Daranas AH, Carrillo R. Dynamic Nucleophilic Aromatic Substitution of Tetrazines. Angew Chem Int Ed Engl 2021; 60:18783-18791. [PMID: 34085747 PMCID: PMC8457238 DOI: 10.1002/anie.202106230] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2021] [Indexed: 12/13/2022]
Abstract
A dynamic nucleophilic aromatic substitution of tetrazines (SN Tz) is presented herein. It combines all the advantages of dynamic covalent chemistry with the versatility of the tetrazine moiety. Indeed, libraries of compounds or sophisticated molecular structures can be easily obtained, which are susceptible to post-functionalization by inverse electron demand Diels-Alder (IEDDA) reaction, which also locks the exchange. Additionally, the structures obtained can be disassembled upon the application of the right stimulus, either UV irradiation or a suitable chemical reagent. Moreover, SN Tz is compatible with the imine chemistry of anilines. The high potential of this methodology has been proved by building two responsive supramolecular systems: A macrocycle that displays a light-induced release of acetylcholine; and a truncated [4+6] tetrahedral shape-persistent fluorescent cage, which is disassembled by thiols unless it is post-stabilized by IEDDA.
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Affiliation(s)
- Tanausú Santos
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
| | - David S. Rivero
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
| | - Yaiza Pérez‐Pérez
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
| | - Endika Martín‐Encinas
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
| | - Jorge Pasán
- Laboratorio de Materiales para Análisis Químicos (MAT4LL)Departamento de FísicaUniversidad de La Laguna (ULL)38206La LagunaTenerifeSpain
| | - Antonio Hernández Daranas
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
| | - Romen Carrillo
- Functional Molecular Systems GroupInstituto de Productos Naturales y Agrobiología (IPNA-CSIC)Avda. Astrofísico Fco. Sánchez 338206La LagunaSpain
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20
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Schaufelberger F, Ramström O. Activated Self-Resolution and Error-Correction in Catalytic Reaction Networks*. Chemistry 2021; 27:10335-10340. [PMID: 33780566 DOI: 10.1002/chem.202100208] [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: 01/20/2021] [Indexed: 01/02/2023]
Abstract
Understanding the emergence of function in complex reaction networks is a primary goal of systems chemistry and origin-of-life studies. Especially challenging is to create systems that simultaneously exhibit several emergent functions that can be independently tuned. In this work, a multifunctional complex reaction network of nucleophilic small molecule catalysts for the Morita-Baylis-Hillman (MBH) reaction is demonstrated. The dynamic system exhibited triggered self-resolution, preferentially amplifying a specific catalyst/product set out of a many potential alternatives. By utilizing selective reversibility of the products of the reaction set, systemic thermodynamically driven error-correction could also be introduced. To achieve this, a dynamic covalent MBH reaction based on adducts with internal H-transfer capabilities was developed. By careful tuning of the substituents, rate accelerations of retro-MBH reactions of up to four orders of magnitude could be obtained. This study thus demonstrates how efficient self-sorting of catalytic systems can be achieved through an interplay of several complex emergent functionalities.
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Affiliation(s)
- Fredrik Schaufelberger
- Department of Chemistry, KTH - Royal Institute of Technology Teknikringen 36, 10044 Stockholm (Sweden)
| | - Olof Ramström
- Department of Chemistry, KTH - Royal Institute of Technology Teknikringen 36, 10044 Stockholm (Sweden).,Department of Chemistry, University of Massachusetts Lowell, One University Ave., Lowell, MA, 01854, USA.,Department of Chemistry and Biomedical Sciences, Linnaeus University, 39182, Kalmar, Sweden
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21
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Santos T, Rivero DS, Pérez‐Pérez Y, Martín‐Encinas E, Pasán J, Daranas AH, Carrillo R. Dynamic Nucleophilic Aromatic Substitution of Tetrazines. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202106230] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Tanausú Santos
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
| | - David S. Rivero
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
| | - Yaiza Pérez‐Pérez
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
| | - Endika Martín‐Encinas
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
| | - Jorge Pasán
- Laboratorio de Materiales para Análisis Químicos (MAT4LL) Departamento de Física Universidad de La Laguna (ULL) 38206 La Laguna Tenerife Spain
| | - Antonio Hernández Daranas
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
| | - Romen Carrillo
- Functional Molecular Systems Group Instituto de Productos Naturales y Agrobiología (IPNA-CSIC) Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Spain
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22
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Liu B, Beatty MA, Pappas CG, Liu K, Ottelé J, Otto S. Self‐Sorting in Dynamic Combinatorial Libraries Leads to the Co‐Existence of Foldamers and Self‐Replicators. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202101052] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Bin Liu
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Meagan A. Beatty
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Charalampos G. Pappas
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Kai Liu
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Jim Ottelé
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Sijbren Otto
- Centre for Systems Chemistry Stratingh Institute University of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
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23
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Liu B, Beatty MA, Pappas CG, Liu K, Ottelé J, Otto S. Self-Sorting in Dynamic Combinatorial Libraries Leads to the Co-Existence of Foldamers and Self-Replicators. Angew Chem Int Ed Engl 2021; 60:13569-13573. [PMID: 33949062 PMCID: PMC8252005 DOI: 10.1002/anie.202101052] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Indexed: 12/27/2022]
Abstract
Nature segregates fundamental tasks such as information storage/transmission and catalysis between two different compound classes (e.g. polynucleotides for replication and folded polyamides for catalysis). This division of labor is likely a product of evolution, raising the question of how simpler systems in which replicators and folded macromolecules co-exist may emerge in the transition from chemistry to biology. In synthetic systems, achieving co-existence of replicators and foldamers in a single molecular network remains an unsolved problem. Previous work on dynamic molecular networks has given rise to either self-replicating fibers or well-defined foldamer structures (or completely un-sorted complex systems). We report a system in which two cross-reactive dithiol (nucleobase- and peptide-based) building blocks self-sort into a replicator fiber and foldamer that both emerge spontaneously and co-exist. The self-sorting behavior remains prevalent across different building block ratios as two phases of emergence occur: replicator growth followed by foldamer formation. This is attributed to the autocatalytic formation of the replicator fiber, followed by enrichment of the system in the remaining building block, which is subsequently incorporated into a foldamer.
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Affiliation(s)
- Bin Liu
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
| | - Meagan A Beatty
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
| | - Charalampos G Pappas
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
| | - Kai Liu
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
| | - Jim Ottelé
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
| | - Sijbren Otto
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, Netherlands
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24
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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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25
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Sattar F, Feng Z, Zou H, Ye H, Zhang Y, You L. Dynamic covalent bond constrained ureas for multimode fluorescence switching, thermally induced emission, and chemical signaling cascades. Org Chem Front 2021. [DOI: 10.1039/d1qo00500f] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
A combination of organic ureas and dynamic covalent chemistry was demonstrated for multistate switching, thermally induced fluorescence, and signaling cascades.
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Affiliation(s)
- Fazli Sattar
- State Key Laboratory of Structural Chemistry
- Fujian Institute of Research on the Structure of Matter
- Chinese Academy of Sciences
- Fuzhou
- China
| | - Zelin Feng
- State Key Laboratory of Structural Chemistry
- Fujian Institute of Research on the Structure of Matter
- Chinese Academy of Sciences
- Fuzhou
- China
| | - Hanxun Zou
- State Key Laboratory of Structural Chemistry
- Fujian Institute of Research on the Structure of Matter
- Chinese Academy of Sciences
- Fuzhou
- China
| | - Hebo Ye
- State Key Laboratory of Structural Chemistry
- Fujian Institute of Research on the Structure of Matter
- Chinese Academy of Sciences
- Fuzhou
- China
| | - Yi Zhang
- School of Materials Science and Energy Engineering
- Foshan University
- Foshan
- China
| | - Lei You
- State Key Laboratory of Structural Chemistry
- Fujian Institute of Research on the Structure of Matter
- Chinese Academy of Sciences
- Fuzhou
- China
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26
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Ren Y, Kravchenko O, Ramström O. Configurational and Constitutional Dynamics of Enamine Molecular Switches. Chemistry 2020; 26:15654-15663. [PMID: 33044767 PMCID: PMC7756271 DOI: 10.1002/chem.202003478] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Indexed: 12/11/2022]
Abstract
Dual configurational and constitutional dynamics in systems based on enamine molecular switches has been systematically studied. pH-responsive moieties, such as 2-pyridyl and 2-quinolinyl units, were required on the "stator" part, also providing enamine stability through intramolecular hydrogen-bonding (IMHB) effects. Upon protonation or deprotonation, forward and backward switching could be rapidly achieved. Extension of the stator π-system in the 2-quinolinyl derivative provided a higher E-isomeric equilibrium ratio under neutral conditions, pointing to a means to achieve quantitative forward/backward isomerization processes. The "rotor" part of the enamine switches exhibited constitutional exchange ability with primary amines. Interestingly, considerably higher exchange rates were observed with amines containing ester groups, indicating potential stabilization of the transition state through IMHB. Acids, particularly BiIII , were found to efficiently catalyze the constitutional dynamic processes. In contrast, the enamine and the formed dynamic enamine system showed excellent stability under basic conditions. This coupled configurational and constitutional dynamics expands the scope of dynamic C-C and C-N bonds and potentiates further studies and applications in the fields of molecular machinery and systems chemistry.
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Affiliation(s)
- Yansong Ren
- Department of ChemistryKTH—Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
| | - Oleksandr Kravchenko
- Department of ChemistryKTH—Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
| | - Olof Ramström
- Department of ChemistryKTH—Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
- Department of ChemistryUniversity of Massachusetts LowellOne University Ave.LowellMA01854USA
- Department of Chemistry and Biomedical SciencesLinnaeus University39182KalmarSweden
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27
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Schaufelberger F, Seigel K, Ramström O. Hydrogen-Bond Catalysis of Imine Exchange in Dynamic Covalent Systems. Chemistry 2020; 26:15581-15588. [PMID: 32427370 DOI: 10.1002/chem.202001666] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Indexed: 12/28/2022]
Abstract
The reversibility of imine bonds has been exploited to great effect in the field of dynamic covalent chemistry, with applications such as preparation of functional systems, dynamic materials, molecular machines, and covalent organic frameworks. However, acid catalysis is commonly needed for efficient equilibration of imine mixtures. Herein, it is demonstrated that hydrogen bond donors such as thioureas and squaramides can catalyze the equilibration of dynamic imine systems under unprecedentedly mild conditions. Catalysis occurs in a range of solvents and in the presence of many sensitive additives, showing moderate to good rate accelerations for both imine metathesis and transimination with amines, hydrazines, and hydroxylamines. Furthermore, the catalyst proved simple to immobilize, introducing both reusability and extended control of the equilibration process.
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Affiliation(s)
- Fredrik Schaufelberger
- Department of Chemistry, KTH-Royal Institute of Technology, Teknikringen 36, 10044, Stockholm, Sweden
| | - Karolina Seigel
- Department of Chemistry, KTH-Royal Institute of Technology, Teknikringen 36, 10044, Stockholm, Sweden
| | - Olof Ramström
- Department of Chemistry, KTH-Royal Institute of Technology, Teknikringen 36, 10044, Stockholm, Sweden.,Department of Chemistry, University of Massachusetts Lowell, One University Ave., Lowell, MA, 01854, USA.,Department of Chemistry and Biomedical Sciences, Linnaeus University, 39182, Kalmar, Sweden
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28
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Puangsamlee T, Miljanić OŠ. Three-Way Chemoselectivity Switching through Coupled Equilibria. Org Lett 2020; 22:5900-5904. [PMID: 32663404 DOI: 10.1021/acs.orglett.0c02003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Controlling the chemoselectivity of reactions operating on complex mixtures, including those found in biological and petrochemical feedstocks or in the primordial soup from which life emerged, is generally challenging. The selectivity of imine oxidation can be controlled in dynamic combinatorial libraries, wherein coupled equilibria of imine exchange and the diaza-Cope rearrangement determine whether and when the oxidizable precursor is made available to the oxidant. Adjusting the rate of oxidant addition allows the isolation of three dominant products.
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Affiliation(s)
- Thamon Puangsamlee
- Department of Chemistry, University of Houston, Houston, Texas 77204-5003, United States
| | - Ognjen Š Miljanić
- Department of Chemistry, University of Houston, Houston, Texas 77204-5003, United States
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29
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30
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Ren CZJ, Solís-Muñana P, Warr GG, Chen JLY. Dynamic and Modular Formation of a Synergistic Transphosphorylation Catalyst. ACS Catal 2020. [DOI: 10.1021/acscatal.0c01321] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Chloe Z.-J. Ren
- Centre for Biomedical and Chemical Sciences, School of Science, Auckland University of Technology, Auckland 1010, New Zealand
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Wellington 6140, New Zealand
| | - Pablo Solís-Muñana
- Centre for Biomedical and Chemical Sciences, School of Science, Auckland University of Technology, Auckland 1010, New Zealand
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Wellington 6140, New Zealand
| | - Gregory G. Warr
- School of Chemistry, The University of Sydney, Sydney, New South Wales 2006, Australia
| | - Jack L.-Y. Chen
- Centre for Biomedical and Chemical Sciences, School of Science, Auckland University of Technology, Auckland 1010, New Zealand
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Wellington 6140, New Zealand
- Department of Biotechnology, Chemistry and Pharmaceutical Sciences, Università degli Studi di Siena, 53100 Siena, Italy
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31
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Kieffer M, Bilbeisi RA, Thoburn JD, Clegg JK, Nitschke JR. Guest Binding Drives Host Redistribution in Libraries of Co II 4 L 4 Cages. Angew Chem Int Ed Engl 2020; 59:11369-11373. [PMID: 32243707 PMCID: PMC7383889 DOI: 10.1002/anie.202004627] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Indexed: 12/29/2022]
Abstract
Two CoII 4 L4 tetrahedral cages prepared from similar building blocks showed contrasting host-guest properties. One cage did not bind guests, whereas the second encapsulated a series of anions, due to electronic and geometric effects. When the building blocks of both cages were present during self-assembly, a library of five CoII LA x LB 4-x cages was formed in a statistical ratio in the absence of guests. Upon incorporation of anions able to interact preferentially with some library members, the products obtained were redistributed in favor of the best anion binders. To quantify the magnitudes of these templation effects, ESI-MS was used to gauge the effect of each template upon library redistribution.
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Affiliation(s)
- Marion Kieffer
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
| | - Rana A. Bilbeisi
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
- Department of Civil and Environmental EngineeringAmerican University of BeirutBeirutLebanon
| | - John D. Thoburn
- Department of ChemistryRandolph-Macon CollegeAshlandVA23005USA
| | - Jack K. Clegg
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
- School of Chemistry and Molecular BiosciencesThe University of QueenslandSt LuciaQLD4072Australia
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32
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Robertson CC, Kosikova T, Philp D. Encoding Multiple Reactivity Modes within a Single Synthetic Replicator. J Am Chem Soc 2020; 142:11139-11152. [PMID: 32414236 DOI: 10.1021/jacs.0c03527] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Establishing programmable and self-sustaining replication networks in pools of chemical reagents is a key challenge in systems chemistry. Self-replicating templates are formed from two constituent components with complementary recognition and reactive sites via a slow bimolecular pathway and a fast template-directed pathway. Here, we re-engineer one of the components of a synthetic replicator to encode an additional recognition function, permitting the assembly of a binary complex between the components that mediates replicator formation through a template-independent pathway, which achieves maximum rate acceleration at early time points in the replication process. The complementarity between recognition sites creates a key conformational equilibrium between the catalytically inert product, formed via the template-independent pathway, and the catalytically active replicator that mediates the template-directed pathway. Consequently, the rapid formation of the catalytically inert isomer kick-starts replication through the template-directed pathway. Through kinetic analyses, we demonstrate that the presence of the two recognition-mediated reactivity modes results in enhanced template formation in comparison to that of systems capable of exploiting only a single recognition-mediated pathway. Finally, kinetic simulations reveal that the conformational equilibrium and both the relative and absolute efficiencies of the recognition-mediated pathways affect the extent to which self-replicating systems can benefit from this additional template-independent reactivity mode. These results allow us to formulate the rules that govern the coupling of replication processes to alternative recognition-mediated reactivity modes. The interplay between template-directed and template-independent pathways for replicator formation has significant relevance to ongoing efforts to design programmable and adaptable replicator networks.
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Affiliation(s)
- Craig C Robertson
- School of Chemistry and EaStCHEM, University of St Andrews, North Haugh, St Andrews, Fife KY16 9ST, United Kingdom
| | - Tamara Kosikova
- School of Chemistry and EaStCHEM, University of St Andrews, North Haugh, St Andrews, Fife KY16 9ST, United Kingdom.,Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208-3113, United States
| | - Douglas Philp
- School of Chemistry and EaStCHEM, University of St Andrews, North Haugh, St Andrews, Fife KY16 9ST, United Kingdom.,Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208-3113, United States
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33
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34
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Biswas PK, Saha S, Gaikwad S, Schmittel M. Reversible Multicomponent AND Gate Triggered by Stoichiometric Chemical Pulses Commands the Self-Assembly and Actuation of Catalytic Machinery. J Am Chem Soc 2020; 142:7889-7897. [DOI: 10.1021/jacs.0c01315] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Pronay Kumar Biswas
- Center of Micro- and Nanochemistry and Engineering, Organische Chemie I, Adolf-Reichwein-Str. 2, D-57068 Siegen, Germany
| | - Suchismita Saha
- Center of Micro- and Nanochemistry and Engineering, Organische Chemie I, Adolf-Reichwein-Str. 2, D-57068 Siegen, Germany
| | - Sudhakar Gaikwad
- Center of Micro- and Nanochemistry and Engineering, Organische Chemie I, Adolf-Reichwein-Str. 2, D-57068 Siegen, Germany
| | - Michael Schmittel
- Center of Micro- and Nanochemistry and Engineering, Organische Chemie I, Adolf-Reichwein-Str. 2, D-57068 Siegen, Germany
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Mao J, Hai Y, Ye H, You L. Adaptive Covalent Networks Enabled by Dual Reactivity: The Evolution of Reversible Covalent Bonds, Their Molecular Assemblies, and Guest Recognition. J Org Chem 2020; 85:5351-5361. [PMID: 32250630 DOI: 10.1021/acs.joc.0c00051] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Adaptive chemistry allows transformation and selection within molecular networks, and adaptive systems composed of different types of dynamic covalent reactions (DCRs) are challenging. Herein, we demonstrate dual reactivity-based covalent networks encompassing the regulation of and switching between C-N- and C-S-based reversible covalent assemblies. The creation and exchange of C-N- or C-S-derived assemblies exhibiting diverse architectures, including linear structures, macrocycles, and cages, were achieved. The shift of reactivity then permitted the interconversion between C-N- and C-S-containing assemblies. Moreover, the adaption of intramolecular and intermolecular scaffolds was feasible via linker design. The latent hemiaminal chirality center offered a pathway for the induction of chirality within assemblies. Finally, switchable structural change and controlled extraction of ions were realized with Hg2+ as a guest for macrocycles. The remarkable complexity of networks described herein could open the door for the utility in sophisticated functional systems.
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Affiliation(s)
- Jialin Mao
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yu Hai
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hebo Ye
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China
| | - Lei You
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.,University of Chinese Academy of Sciences, Beijing 100049, China
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36
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Pramanik M, Choudhuri K, Chakraborty S, Ghosh A, Mal P. (Z)-Selective anti-Markovnikov or Markovnikov thiol-yne-click reactions of an internal alkyne by amide hydrogen bond control. Chem Commun (Camb) 2020; 56:2991-2994. [PMID: 32043509 DOI: 10.1039/d0cc00702a] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Herein, we show exclusive control of stereo and regioselective thiol-yne click (TYC) reactions of internal alkynes via amide hydrogen bond control. By exploiting appropriate hydrogen bonding interactions like N-HS, N-HN and C-HO, either (Z)-selective anti-Markovnikov or Markovnikov products could be obtained for an internal alkyne, exclusively.
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Affiliation(s)
- Milan Pramanik
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India.
| | - Khokan Choudhuri
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India.
| | - Subhayan Chakraborty
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India.
| | - Arindam Ghosh
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India.
| | - Prasenjit Mal
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India.
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Affiliation(s)
- Iuliia Myrgorodska
- University of OxfordChemistry Research Laboratory 12 Mansfield Road Oxford OX1 3TA UK
| | - Ignacio Colomer
- University of OxfordChemistry Research Laboratory 12 Mansfield Road Oxford OX1 3TA UK
| | - Stephen P. Fletcher
- University of OxfordChemistry Research Laboratory 12 Mansfield Road Oxford OX1 3TA UK
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38
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Karalius A, Zhang Y, Kravchenko O, Elofsson U, Szabó Z, Yan M, Ramström O. Formation and Out‐of‐Equilibrium, High/Low State Switching of a Nitroaldol Dynamer in Neutral Aqueous Media. Angew Chem Int Ed Engl 2020; 59:3434-3438. [DOI: 10.1002/anie.201911706] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Revised: 11/19/2019] [Indexed: 11/06/2022]
Affiliation(s)
- Antanas Karalius
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Yang Zhang
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Oleksandr Kravchenko
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Ulla Elofsson
- Bioscience and Materials divisionResearch Institutes of Sweden Box 5607 114 86 Stockholm Sweden
| | - Zoltán Szabó
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Mingdi Yan
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
- Department of ChemistryUniversity of Massachusetts Lowell One University Ave. Lowell MA 01854 USA
| | - Olof Ramström
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
- Department of ChemistryUniversity of Massachusetts Lowell One University Ave. Lowell MA 01854 USA
- Department of Chemistry and Biomedical SciencesLinnaeus University 39182 Kalmar Sweden
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39
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Karalius A, Zhang Y, Kravchenko O, Elofsson U, Szabó Z, Yan M, Ramström O. Formation and Out‐of‐Equilibrium, High/Low State Switching of a Nitroaldol Dynamer in Neutral Aqueous Media. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201911706] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Antanas Karalius
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Yang Zhang
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Oleksandr Kravchenko
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Ulla Elofsson
- Bioscience and Materials divisionResearch Institutes of Sweden Box 5607 114 86 Stockholm Sweden
| | - Zoltán Szabó
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
| | - Mingdi Yan
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
- Department of ChemistryUniversity of Massachusetts Lowell One University Ave. Lowell MA 01854 USA
| | - Olof Ramström
- Department of ChemistryKTH—Royal Institute of Technology Teknikringen 36 10044 Stockholm Sweden
- Department of ChemistryUniversity of Massachusetts Lowell One University Ave. Lowell MA 01854 USA
- Department of Chemistry and Biomedical SciencesLinnaeus University 39182 Kalmar Sweden
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40
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Martinez-Amezaga M, Orrillo AG, Furlan RLE. Engineering multilayer chemical networks. Chem Sci 2019; 10:8338-8347. [PMID: 31803411 PMCID: PMC6844274 DOI: 10.1039/c9sc02166c] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Accepted: 07/28/2019] [Indexed: 12/19/2022] Open
Abstract
Dynamic multilevel systems emerged in the last few years as new platforms to study thermodynamic systems. In this work, unprecedented fully communicated three-level systems are studied. First, different conditions were screened to selectively activate thiol/dithioacetal, thiol/thioester, and thiol/disulfide exchanges, individually or in pairs. Some of those conditions were applied, sequentially, to build multilayer dynamic systems wherein information, in the form of relative amounts of building blocks, can be directionally transmitted between different exchange pools. As far as we know, this is the first report of one synthetic dynamic chemical system where relationships between layers can be changed through network operations.
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Affiliation(s)
- Maitena Martinez-Amezaga
- Farmacognosia , Facultad de Ciencias Bioquímicas y Farmacéuticas , Universidad Nacional de Rosario - CONICET , Suipacha 531 , Rosario , S2002SLRK , Argentina .
| | - A Gastón Orrillo
- Farmacognosia , Facultad de Ciencias Bioquímicas y Farmacéuticas , Universidad Nacional de Rosario - CONICET , Suipacha 531 , Rosario , S2002SLRK , Argentina .
| | - Ricardo L E Furlan
- Farmacognosia , Facultad de Ciencias Bioquímicas y Farmacéuticas , Universidad Nacional de Rosario - CONICET , Suipacha 531 , Rosario , S2002SLRK , Argentina .
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41
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Goswami A, Paululat T, Schmittel M. Switching Dual Catalysis without Molecular Switch: Using A Multicomponent Information System for Reversible Reconfiguration of Catalytic Machinery. J Am Chem Soc 2019; 141:15656-15663. [DOI: 10.1021/jacs.9b07737] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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42
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Huck J, Kosikova T, Philp D. Compositional Persistence in a Multicyclic Network of Synthetic Replicators. J Am Chem Soc 2019; 141:13905-13913. [PMID: 31403776 DOI: 10.1021/jacs.9b06697] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The emergence of collections of simple chemical entities that create self-sustaining reaction networks, embedding replication and catalysis, is cited as a potential mechanism for the appearance on the early Earth of systems that satisfy minimal definitions of life. In this work, a functional reaction network that creates and maintains a set of privileged replicator structures through auto- and cross-catalyzed reaction cycles is created from the pairwise combinations of four reagents. We show that the addition of individual preformed templates to this network, representing instructions to synthesize a specific replicator, induces changes in the output composition of the system that represent a network-level response. Further, we establish through sets of serial transfer experiments that the catalytic connections that exist between the four replicators in this network and the system-level behavior thereby encoded impose limits on the compositional variability that can be induced by repeated exposure to instructional inputs, in the form of preformed templates, to the system. The origin of this persistence is traced through kinetic simulations to the properties and inter-relationships between the critical ternary complexes formed by the auto- and crosscatalytic templates. These results demonstrate that in an environment where there is no continuous selection pressure the network connectivity, described by the catalytic relationships and system-level interactions between the replicators, is persistent, thereby limiting the ability of this network to adapt and evolve.
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Affiliation(s)
- Jürgen Huck
- School of Chemistry and EaStCHEM , University of St Andrews , North Haugh , St Andrews , Fife KY16 9ST , U.K
| | - Tamara Kosikova
- School of Chemistry and EaStCHEM , University of St Andrews , North Haugh , St Andrews , Fife KY16 9ST , U.K
| | - Douglas Philp
- School of Chemistry and EaStCHEM , University of St Andrews , North Haugh , St Andrews , Fife KY16 9ST , U.K
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43
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Sabatino A, Penocchio E, Ragazzon G, Credi A, Frezzato D. Individual‐Molecule Perspective Analysis of Chemical Reaction Networks: The Case of a Light‐Driven Supramolecular Pump. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201908026] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Andrea Sabatino
- Dipartimento di Scienze Chimiche Università degli Studi di Padova Via Marzolo 1 35131 Padova Italy
| | - Emanuele Penocchio
- Complex Systems and Statistical Mechanics, Physics and Materials Science Unit University of Luxembourg 162 A, avenue de la Faïencerie 1511 Luxembourg Luxembourg
| | - Giulio Ragazzon
- Department of Chemical and Pharmaceutical Sciences Università degli Studi di Trieste via Giorgieri 1 34127 Trieste Italy
| | - Alberto Credi
- Center for Light Activated Nanostructures (CLAN) Dipartimento di Scienze e Tecnologie Agro-alimentari Università di Bologna, and Istituto ISOF Consiglio Nazionale delle Ricerche Via Gobetti 101 40129 Bologna Italy
| | - Diego Frezzato
- Dipartimento di Scienze Chimiche Università degli Studi di Padova Via Marzolo 1 35131 Padova Italy
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44
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Sabatino A, Penocchio E, Ragazzon G, Credi A, Frezzato D. Individual-Molecule Perspective Analysis of Chemical Reaction Networks: The Case of a Light-Driven Supramolecular Pump. Angew Chem Int Ed Engl 2019; 58:14341-14348. [PMID: 31379048 PMCID: PMC6899705 DOI: 10.1002/anie.201908026] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Indexed: 11/10/2022]
Abstract
The first study in which stochastic simulations of a two‐component molecular machine are performed in the mass‐action regime is presented. This system is an autonomous molecular pump consisting of a photoactive axle that creates a directed flow of rings through it by exploiting light energy away from equilibrium. The investigation demonstrates that the pump can operate in two regimes, both experimentally accessible, in which light‐driven steps can be rate‐determining or not. The number of photons exploited by an individual molecular pump, as well as the precision of cycling and the overall efficiency, critically rely on the operating regime of the machine. This approach provides useful information not only to guide the chemical design of a self‐assembling molecular device with desired features, but also to elucidate the effect of the environment on its performance, thus facilitating its experimental investigation.
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Affiliation(s)
- Andrea Sabatino
- Dipartimento di Scienze Chimiche, Università degli Studi di Padova, Via Marzolo 1, 35131, Padova, Italy
| | - Emanuele Penocchio
- Complex Systems and Statistical Mechanics, Physics and Materials Science Unit, University of Luxembourg, 162 A, avenue de la Faïencerie, 1511, Luxembourg, Luxembourg
| | - Giulio Ragazzon
- Department of Chemical and Pharmaceutical Sciences, Università degli Studi di Trieste, via Giorgieri 1, 34127, Trieste, Italy
| | - Alberto Credi
- Center for Light Activated Nanostructures (CLAN), Dipartimento di Scienze e Tecnologie Agro-alimentari, Università di Bologna, and Istituto ISOF, Consiglio Nazionale delle Ricerche, Via Gobetti 101, 40129, Bologna, Italy
| | - Diego Frezzato
- Dipartimento di Scienze Chimiche, Università degli Studi di Padova, Via Marzolo 1, 35131, Padova, Italy
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45
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Osypenko A, Dhers S, Lehn JM. Pattern Generation and Information Transfer through a Liquid/Liquid Interface in 3D Constitutional Dynamic Networks of Imine Ligands in Response to Metal Cation Effectors. J Am Chem Soc 2019; 141:12724-12737. [DOI: 10.1021/jacs.9b05438] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Artem Osypenko
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d’Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, 8 allée Gaspard Monge, 67000 Strasbourg, France
| | - Sébastien Dhers
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d’Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, 8 allée Gaspard Monge, 67000 Strasbourg, France
| | - Jean-Marie Lehn
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d’Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, 8 allée Gaspard Monge, 67000 Strasbourg, France
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46
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Serra-Pont A, Alfonso I, Solà J, Jimeno C. An efficient dynamic asymmetric catalytic system within a zinc-templated network. Chem Commun (Camb) 2019; 55:7970-7973. [PMID: 31219483 DOI: 10.1039/c9cc03958a] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Enhanced cooperativity leading to high catalytic activity and stereoselectivity has been achieved through a complex network of simple species interacting reversibly. This novel dynamic catalytic system relies on bipyridine-based organocatalytic ligands and zinc(ii) as the template. It demonstrates the effectiveness of dealing with mixtures rather than single species in asymmetric catalysis.
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Affiliation(s)
- Anna Serra-Pont
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Ignacio Alfonso
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Jordi Solà
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Ciril Jimeno
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
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47
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Recreating ancient metabolic pathways before enzymes. Bioorg Med Chem 2019; 27:2292-2297. [DOI: 10.1016/j.bmc.2019.03.012] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Revised: 03/02/2019] [Accepted: 03/06/2019] [Indexed: 12/12/2022]
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48
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Bose A, Mal P. Mechanochemistry of supramolecules. Beilstein J Org Chem 2019; 15:881-900. [PMID: 31019581 PMCID: PMC6466741 DOI: 10.3762/bjoc.15.86] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2019] [Accepted: 03/22/2019] [Indexed: 12/21/2022] Open
Abstract
The urge to use alternative energy sources has gained significant attention in the eye of chemists in recent years. Solution-based traditional syntheses are extremely useful, although they are often associated with certain disadvantages like generation of waste as by-products, use of large quantities of solvents which causes environmental hazard, etc. Contrastingly, achieving syntheses through mechanochemical methods are generally time-saving, environmentally friendly and more economical. This review is written to shed some light on supramolecular chemistry and the synthesis of various supramolecules through mechanochemistry.
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Affiliation(s)
- Anima Bose
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India
| | - Prasenjit Mal
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar, PO Bhimpur-Padanpur, Via Jatni, District Khurda, Odisha 752050, India
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49
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Choudhuri K, Maiti S, Mal P. Iodine(III) Enabled Dehydrogenative Aryl C−S Coupling by in situ Generated Sulfenium Ion. Adv Synth Catal 2019. [DOI: 10.1002/adsc.201801510] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Khokan Choudhuri
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar; PO Bhimpur-Padanpur; Via Jatni, District Khurda Odisha 752050 India
| | - Saikat Maiti
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar; PO Bhimpur-Padanpur; Via Jatni, District Khurda Odisha 752050 India
| | - Prasenjit Mal
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), HBNI, Bhubaneswar; PO Bhimpur-Padanpur; Via Jatni, District Khurda Odisha 752050 India
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50
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Rizzuto FJ, Pröhm P, Plajer AJ, Greenfield JL, Nitschke JR. Hydrogen-Bond-Assisted Symmetry Breaking in a Network of Chiral Metal–Organic Assemblies. J Am Chem Soc 2019; 141:1707-1715. [DOI: 10.1021/jacs.8b12323] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Felix J. Rizzuto
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
| | - Patrick Pröhm
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
| | - Alex J. Plajer
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
| | - Jake L. Greenfield
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
| | - Jonathan R. Nitschke
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, U.K
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