1
|
Esteve F, Rieu T, Lehn JM. Key structural features to favour imines over hydrates in water: pyridoxal phosphate as a muse. Chem Sci 2024; 15:10408-10415. [PMID: 38994419 PMCID: PMC11234862 DOI: 10.1039/d4sc02206h] [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] [Received: 04/03/2024] [Accepted: 06/10/2024] [Indexed: 07/13/2024] Open
Abstract
Imination reactions in water represent a challenge not only because of the high propensity of imines to be hydrolysed but also as a result of the competing hydrate formation through H2O addition to the aldehyde. In the present work we report a successful approach that allows for favouring imitation reactions while silencing hydrate formation. Such remarkable reactivity and selectivity can be attained by fine-tuning the electronic and steric structural features of the ortho-substituents of the carbonyl groups. It resulted from studying the structure-reactivity relationships in a series of condensation reactions between different amines and aldehydes, comparing the results to the ones obtained in the presence of the biologically-relevant pyridoxal phosphate (PLP). The key role of negatively-charged and sterically-crowding units (i.e., sulfonate groups) in disfavouring hydrate formation was corroborated by DFT and steric-hindrance calculations. Furthermore, the best-performing aldehyde leads to higher imine yields, selectivity and stability than those of PLP itself, allowing for the inhibition of a PLP-dependent enzyme (transaminase) through dynamic aldimine exchange. These results will increase the applicability of imine-based dynamic covalent chemistry (DCvC) under physiological conditions and will pave the way for the design of new carbonyl derivatives that might be used in the dynamic modification of biomolecules.
Collapse
Affiliation(s)
- Ferran Esteve
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge Strasbourg 67000 France
| | - Tanguy Rieu
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge Strasbourg 67000 France
| | - Jean-Marie Lehn
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge Strasbourg 67000 France
| |
Collapse
|
2
|
Faikhruea K, Supabowornsathit K, Angsujinda K, Aonbangkhen C, Chaikeeratisak V, Palaga T, Assavalapsakul W, Wagenknecht HA, Vilaivan T. Nucleic Acid-Templated Synthesis of Cationic Styryl Dyes in Vitro and in Living Cells. Chemistry 2024; 30:e202400913. [PMID: 38563862 DOI: 10.1002/chem.202400913] [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: 03/26/2024] [Accepted: 03/27/2024] [Indexed: 04/04/2024]
Abstract
A novel method for synthesizing cationic styryl dyes through a nucleic acid-templated reaction has been developed. This approach overcomes issues associated with traditional synthesis methods, such as harsh conditions, low throughput, and wasteful chemicals. The presence of a nucleic acid template accelerated the styryl dye formation from quaternized heteroaromatic and cationic aldehyde substrates. These styryl dyes show remarkable optical properties change when bound to nucleic acids, hence the success of the synthesis could be readily monitored in situ by UV-Vis and fluorescence spectroscopy and the optical properties data were also observable at the same time. This method provides the desired products from a broad range of coupling partners. By employing different substrates and templates, it is possible to identify new dyes that can bind to a specific type of nucleic acid such as a G-quadruplex. The templated dye synthesis is also successfully demonstrated in live HeLa cells. This approach is a powerful tool for the rapid synthesis and screening of dyes specific for diverse types of nucleic acids or cellular organelles, facilitating new biological discoveries.
Collapse
Affiliation(s)
- Kriangsak Faikhruea
- Organic Synthesis Research Unit (OSRU), Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Kotchakorn Supabowornsathit
- Organic Synthesis Research Unit (OSRU), Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Kitipong Angsujinda
- Aquatic Resources Research Institute, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Chanat Aonbangkhen
- Center of Excellence in Natural Products Chemistry (CENP), Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Vorrapon Chaikeeratisak
- Department of Biochemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Tanapat Palaga
- Department of Microbiology, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Wanchai Assavalapsakul
- Department of Microbiology, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
| | - Tirayut Vilaivan
- Organic Synthesis Research Unit (OSRU), Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok, 10330, Thailand
| |
Collapse
|
3
|
Wilson KR, Prophet AM. Chemical Kinetics in Microdroplets. Annu Rev Phys Chem 2024; 75:185-208. [PMID: 38382571 DOI: 10.1146/annurev-physchem-052623-120718] [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: 02/23/2024]
Abstract
Micrometer-sized compartments play significant roles in driving heterogeneous transformations within atmospheric and biochemical systems as well as providing vehicles for drug delivery and novel reaction environments for the synthesis of industrial chemicals. Many reports now indicate that reaction kinetics are accelerated under microconfinement, for example, in sprays, thin films, droplets, aerosols, and emulsions. These observations are dramatic, posing a challenge to our understanding of chemical reaction mechanisms with potentially significant practical consequences for predicting the complex chemistry in natural systems. Here we introduce the idea of kinetic confinement, which is intended to provide a conceptual backdrop for understanding when and why microdroplet reaction kinetics differ from their macroscale analogs.
Collapse
Affiliation(s)
- Kevin R Wilson
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA;
| | - Alexander M Prophet
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA;
- Department of Chemistry, University of California, Berkeley, California, USA;
| |
Collapse
|
4
|
Rieu T, Osypenko A, Lehn JM. Triple Adaptation of Constitutional Dynamic Networks of Imines in Response to Micellar Agents: Internal Uptake-Interfacial Localization-Shape Transition. J Am Chem Soc 2024; 146:9096-9111. [PMID: 38526415 DOI: 10.1021/jacs.3c14200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/26/2024]
Abstract
Understanding the behavior of complex chemical reaction networks and how environmental conditions can modulate their organization as well as the associated outcomes may take advantage of the design of related artificial systems. Microenvironments with defined boundaries are of particular interest for their unique properties and prebiotic significance. Dynamic covalent libraries (DCvLs) and their underlying constitutional dynamic networks (CDNs) have been shown to be appropriate for studying adaptation to several processes, including compartmentalization. However, microcompartments (e.g., micelles) provide specific environments for the selective protection from interfering reactions such as hydrolysis and an enhanced chemical promiscuity due to the interface, governing different processes of network modulation. Different interactions between the micelles and the library constituents lead to dynamic sensing, resulting in different expressions of the network through pattern generation. The constituents integrated into the micelles are protected from hydrolysis and hence preferentially expressed in the network composition at the cost of constitutionally linked members. In the present work, micellar integration was observed for two processes: internal uptake based on hydrophobic forces and interfacial localization relying on attractive electrostatic interactions. The latter drives a complex triple adaptation of the network with feedback on the shape of the self-assembled entity. Our results demonstrate how microcompartments can enforce the expression of constituents of CDNs by reducing the hydrolysis of uptaken members, unravelling processes that govern the response of reactions networks. Such studies open the way toward using DCvLs and CDNs to understand the emergence of complexity within reaction networks by their interactions with microenvironments.
Collapse
Affiliation(s)
- Tanguy Rieu
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, 8 allée Gaspard Monge, 67000 Strasbourg, France
| | - Artem Osypenko
- 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
| |
Collapse
|
5
|
Park LH, Leitao EM, Weber CC. Green imine synthesis from amines using transition metal and micellar catalysis. Org Biomol Chem 2024; 22:202-227. [PMID: 38018443 DOI: 10.1039/d3ob01730c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2023]
Abstract
Imines are a versatile class of chemicals with applications in pharmaceuticals and as synthetic intermediates. While imines are conventionally synthesized via aldehyde-amine condensation, their direct preparation from amines can avoid the need for the independent preparation of the aldehyde coupling partner and associated constraints with regard to aldehyde storage and purification. The direct preparation of imines from amines typically utilizes transition metal catalysis and is often well-aligned with green chemistry principles. This review provides a comprehensive overview of transition metal catalysed imine synthesis, with a particular focus on the copper-catalyzed oxidative coupling of amines. The emerging application of micellar catalysis for imine synthesis is also surveyed due to its potential to avoid the use of hazardous solvents and intensify these reactions through reduced catalyst loadings and locally increased reactant concentrations. Future directions relating to the confluence of these two areas are proposed towards the more sustainable preparation of imines.
Collapse
Affiliation(s)
- Luke H Park
- School of Chemical Sciences, The University of Auckland, Private Bag, 92019, Auckland, 1142, New Zealand.
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Kelburn, Wellington, 6012, New Zealand
| | - Erin M Leitao
- School of Chemical Sciences, The University of Auckland, Private Bag, 92019, Auckland, 1142, New Zealand.
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Kelburn, Wellington, 6012, New Zealand
| | - Cameron C Weber
- School of Chemical Sciences, The University of Auckland, Private Bag, 92019, Auckland, 1142, New Zealand.
- The MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, Kelburn, Wellington, 6012, New Zealand
| |
Collapse
|
6
|
Esteve F, Rahmatova F, Lehn JM. Supramolecular multivalency effects enhance imine formation in aqueous medium allowing for dynamic modification of enzymatic activity. Chem Sci 2023; 14:10249-10257. [PMID: 37772124 PMCID: PMC10530293 DOI: 10.1039/d3sc04128j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2023] [Accepted: 09/05/2023] [Indexed: 09/30/2023] Open
Abstract
Imine formation under physiological conditions represents a challenging reaction due to the strong propensity of aldimines to be hydrolyzed. Herein we disclose the remarkable effect of supramolecular multivalency on increasing imine stability. A family of reactive aldehydes was synthesized bearing supramolecularly-active sites within their structure. The imine formation activity for such aldehydes was evaluated and compared with model aldehydes. The reaction of the best-performing species - containing two carboxylate groups-with a set of amines showed a significant decrease in imine yields as the degree of supramolecular multivalency between sidechains decreased. The reversible conjugation of amino acid derivatives and small peptides was also assayed, with excellent selectivities for the imine formation at the Nα position even in substrates containing competing sites. Preliminary results on protein bioconjugation revealed that a model enzyme could be dynamically inhibited upon reaction with the aldehyde, with its native activity being recovered by displacing the imine bonds with a suitable chemical effector (i.e., acylhydrazide).
Collapse
Affiliation(s)
- Ferran Esteve
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg 8 allée Gaspard Monge 67000 Strasbourg France
| | - Fidan Rahmatova
- 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
| |
Collapse
|
7
|
Bifari EN, El-Shishtawy RM, Bouzzine SM, Fadili D, Hamidi M. Synthesis, photophysical, electrochemical and computational investigation of dimethine and trimethine cyanine-based dyes. J Photochem Photobiol A Chem 2022. [DOI: 10.1016/j.jphotochem.2022.114189] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
|
8
|
Wee WA, Sugiyama H, Park S. Photoswitchable single-stranded DNA-peptide coacervate formation as a dynamic system for reaction control. iScience 2021; 24:103455. [PMID: 34877509 PMCID: PMC8633985 DOI: 10.1016/j.isci.2021.103455] [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: 09/03/2021] [Revised: 10/13/2021] [Accepted: 11/11/2021] [Indexed: 12/30/2022] Open
Abstract
In cells, segregation allows for diverse biochemical reactions to take place simultaneously. Such intricate regulation of cellular processes is achieved through the dynamic formation and disassembly of membraneless organelles via liquid-liquid phase separation (LLPS). Herein, we demonstrate the light-controlled formation and disassembly of liquid droplets formed from a complex of polylysine (pLys) and arylazopyrazole (AAP)-conjugated single-stranded DNA. Photoswitchablility of droplet formation was also shown to be applicable to the control of chemical reactions; imine formation and a DNAzyme-catalyzed oxidation reaction were accelerated in the presence of droplets. These outcomes were reversed upon droplet disassembly. Our results demonstrate that the photoswitchable droplet formation system is a versatile model for the regulation of reactions through dynamic LLPS. Incorporating AAP enabled light-controlled droplet formation with ssDNA and pLys Droplets were reversibly formed or disassembled without altering sample composition Photoswitchability depended on sequence and ionic interactions but not flexibility Photoswitchable droplet formation accelerated uncatalyzed and catalyzed reactions
Collapse
Affiliation(s)
- Wen Ann Wee
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan
| | - Hiroshi Sugiyama
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan.,Institute for Integrated Cell-Material Science (WPI-iCeMS), Kyoto University, Sakyo, Kyoto 606-8501, Japan
| | - Soyoung Park
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan
| |
Collapse
|
9
|
Jacobs MI, Jira ER, Schroeder CM. Understanding How Coacervates Drive Reversible Small Molecule Reactions to Promote Molecular Complexity. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:14323-14335. [PMID: 34856104 DOI: 10.1021/acs.langmuir.1c02231] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Liquid-liquid phase-separated coacervate droplets give rise to membraneless compartments that play an important role in the spatial organization and reactivity in cells. Due to their molecularly crowded nature and ability to sequester biomolecules, coacervate droplets create distinct environments for enzymatic reaction kinetics and reaction mechanisms that markedly differ from bulk solution. In this work, we use a combination of experiments and quantitative modeling to understand how coacervate droplets promote reversible small molecule reaction chemistry. In particular, we study a model condensation reaction generating an unstable fluorescent imine in polyacrylic acid-polyethylene glycol coacervate droplets over a range of conditions. At equilibrium, the concentration of the imine product in coacervate droplets is approximately 140-fold larger than that in bulk solution, which arises due to preferential partitioning of reactants and products into coacervate droplets and a reaction equilibrium constant that is roughly threefold larger in coacervate droplets than in solution. A reaction-diffusion model is developed to quantitatively describe how competing reaction and partitioning equilibria govern the spatial distribution of the imine product inside coacervate droplets. Overall, our results show that compartmentalization stabilizes kinetically labile reaction products, which enables larger reactant concentrations in coacervate droplets compared to bulk solution. Broadly, these results provide an improved understanding of how biomolecular condensates promote multistep reaction pathways involving unstable reaction intermediates and suggest how coacervates provide a potential abiotic mechanism to promote molecular complexity.
Collapse
Affiliation(s)
- Michael I Jacobs
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Edward R Jira
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Charles M Schroeder
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| |
Collapse
|
10
|
Chen Y, Lei Y, Tong L, Li H. Stabilization of Dynamic Covalent Architectures by Multivalence. Chemistry 2021; 28:e202102910. [PMID: 34591343 DOI: 10.1002/chem.202102910] [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: 09/10/2021] [Indexed: 01/09/2023]
Abstract
The formation of imine bond is reversible. This feature has been taken advantage of by chemists for accomplishing high yielding self-assembly. On the other hand, it also jeopardizes the intrinsic stability of these self-assembled products. However, some recent discoveries demonstrate that some of these imine bond containing molecules could be rather stable or kinetically inert. A deep investigation indicated that such enhanced stability results from, at least partially, multivalence. Such results also inspire chemists to use imine condensation for self-assembly in water, a solvent that is considered not compatible with imine bond for a long time.
Collapse
Affiliation(s)
- Yixin Chen
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Ye Lei
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Lu Tong
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Hao Li
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, P. R. China.,ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 311215, P. R. China
| |
Collapse
|
11
|
Lutz E, Moulin E, Tchakalova V, Benczédi D, Herrmann A, Giuseppone N. Design of Stimuli-Responsive Dynamic Covalent Delivery Systems for Volatile Compounds (Part 1): Controlled Hydrolysis of Micellar Amphiphilic Imines in Water. Chemistry 2021; 27:13457-13467. [PMID: 34270124 DOI: 10.1002/chem.202102049] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Indexed: 12/29/2022]
Abstract
Despite their intrinsic hydrolysable character, imine bonds can become remarkably stable in water when self-assembled in amphiphilic micellar structures. In this work, we systematically studied some of these structures and the influence of various parameters that can be used to take control of their hydrolysis, including pH, concentration, the position of the imine function in the amphiphilic structure, relative lengths of the linked hydrophilic and hydrophobic moieties. Thermodynamic and kinetic data led us to the rational design of stable imines in water, partly based on the location of the imine function within the hydrophobic part of the amphiphile and on a predictable quantitative term that we define as the total hydrophilic-lipophilic balance (HLB). In addition, we show that such stable systems are also stimuli-responsive and therefore, of potential interest in trapping and releasing micellar components on demand.
Collapse
Affiliation(s)
- Eric Lutz
- SAMS Research Group, Institut Charles Sadron, CNRS, University of Strasbourg, 23 rue du Loess, BP 84047, 67034, Strasbourg Cedex 2, France
| | - Emilie Moulin
- SAMS Research Group, Institut Charles Sadron, CNRS, University of Strasbourg, 23 rue du Loess, BP 84047, 67034, Strasbourg Cedex 2, France
| | - Vera Tchakalova
- Firmenich SA, Corporate R&D Division, Rue de la Bergère 7, 1242, Satigny, Switzerland
| | - Daniel Benczédi
- Firmenich SA, Corporate R&D Division, Rue de la Bergère 7, 1242, Satigny, Switzerland
| | - Andreas Herrmann
- Firmenich SA, Corporate R&D Division, Rue de la Bergère 7, 1242, Satigny, Switzerland
| | - Nicolas Giuseppone
- SAMS Research Group, Institut Charles Sadron, CNRS, University of Strasbourg, 23 rue du Loess, BP 84047, 67034, Strasbourg Cedex 2, France
| |
Collapse
|
12
|
Bhandari PJ, Sandanaraj BS. Programmed and Sequential Disassembly of Multi-responsive Supramolecular Protein Nanoassemblies: A Detailed Mechanistic Investigation. Chembiochem 2020; 22:876-887. [PMID: 33073455 DOI: 10.1002/cbic.202000581] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Revised: 10/18/2020] [Indexed: 12/19/2022]
Abstract
The rational design of a multi-responsive protein-based supramolecular system that can predictably respond to more than one stimulus remains an essential but highly challenging goal in biomolecular engineering. Herein, we report a novel chemical method for the construction of multi-responsive supramolecular nanoassemblies using custom-designed facially amphiphilic monodisperse protein-dendron bioconjugates. The macromolecular synthons contain a globular hydrophilic protein domain site-specifically conjugated to photo-responsive hydrophobic benzyl-ether dendrons of different generations through oligo(ethylene glycol) linkers of defined length. The size of the protein nanoassemblies can be systematically tuned by choosing an appropriate dendron or linker of defined length. Exposure of protein nanoassemblies to light results in partial rather than complete disassembly of the complex. The newly formed protein nanoparticle no longer responds to light but could be disassembled into constitutive monomers under acidic conditions or by further treatment with a small molecule. More interestingly, the distribution ratio of the assembled versus disassembled states of protein nanoassemblies after photochemical reaction does not depend on dendron generation, the nature of the linker functionality or the identity of the protein, but is heavily influenced by the linker length. In sum, this work discloses a new chemical method for the rational design of a monodisperse multi-responsive protein-based supramolecular system with exquisite control over the disassembly process.
Collapse
Affiliation(s)
- Pavankumar Janardhan Bhandari
- Department of Chemistry, Indian Institute of Science Education and Research, 100 Homi Bhabha Road, Pune, 411008, India
| | - Britto S Sandanaraj
- Department of Chemistry, Indian Institute of Science Education and Research, 100 Homi Bhabha Road, Pune, 411008, India.,Department of Biology, Indian Institute of Science Education and Research, 100 Homi Bhabha Road, Pune, 411008, India
| |
Collapse
|
13
|
Wilson KR, Prophet AM, Rovelli G, Willis MD, Rapf RJ, Jacobs MI. A kinetic description of how interfaces accelerate reactions in micro-compartments. Chem Sci 2020; 11:8533-8545. [PMID: 34123113 PMCID: PMC8163377 DOI: 10.1039/d0sc03189e] [Citation(s) in RCA: 58] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
A kinetic expression is derived to explain how interfaces alter bulk chemical equilibria and accelerate reactions in micro-compartments. This description, aided by the development of a stochastic model, quantitatively predicts previous experimental observations of accelerated imine synthesis in micron-sized emulsions. The expression accounts for how reactant concentration and compartment size together lead to accelerated reaction rates under micro-confinement. These rates do not depend solely on concentration, but rather the fraction of total molecules in the compartment that are at the interface. Although there are ∼107 to 1013 solute molecules in a typical micro-compartment, a kind of "stochasticity" appears when compartment size and reagent concentration yield nearly equal numbers of bulk and interfacial molecules. Although this is distinct from the stochasticity produced by nano-confinement, these results show how interfaces can govern chemical transformations in larger atmospheric, geologic and biological compartments.
Collapse
Affiliation(s)
- Kevin R Wilson
- Chemical Sciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
| | - Alexander M Prophet
- Chemical Sciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA .,Department of Chemistry, University of California Berkeley CA 94720 USA
| | - Grazia Rovelli
- Chemical Sciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
| | - Megan D Willis
- Chemical Sciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
| | - Rebecca J Rapf
- Chemical Sciences Division, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
| | - Michael I Jacobs
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign Urbana Illinois 61801 USA
| |
Collapse
|
14
|
Morrow SM, Bissette AJ, Fletcher SP. Potential for minimal self-replicating systems in a dynamic combinatorial library of equilibrating imines. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.06.045] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
|
15
|
Wei Z, Wleklinski M, Ferreira C, Cooks RG. Reaction Acceleration in Thin Films with Continuous Product Deposition for Organic Synthesis. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201704520] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Zhenwei Wei
- Department of Chemistry Purdue University West Lafayette IN 47907 USA
| | | | | | - R. Graham Cooks
- Department of Chemistry Purdue University West Lafayette IN 47907 USA
| |
Collapse
|
16
|
Wei Z, Wleklinski M, Ferreira C, Cooks RG. Reaction Acceleration in Thin Films with Continuous Product Deposition for Organic Synthesis. Angew Chem Int Ed Engl 2017; 56:9386-9390. [PMID: 28557142 DOI: 10.1002/anie.201704520] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2017] [Indexed: 01/22/2023]
Abstract
Thin film formats are used to study the Claisen-Schmidt base-catalyzed condensation of 6-hydroxy-1-indanone with substituted benzaldehydes and to compare the reaction acceleration relative to the bulk. Relative acceleration factors initially exceeded 103 and were on the order of 102 at steady state, although the confined volume reaction was not electrostatically driven. Substituent effects were muted compared to those in the corresponding bulk and microdroplet reactions and it is concluded that the rate-limiting step at steady state is reagent transport to the interface. Conditions were found that allowed product deposition from the thin film to occur continuously as the reaction mixture was added and as the solvent evaporated. Yields of 74 % and production rates of 98 mg h-1 were reached in a very simple experimental system that could be multiplexed to greater scales.
Collapse
Affiliation(s)
- Zhenwei Wei
- Department of Chemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - Michael Wleklinski
- Department of Chemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - Christina Ferreira
- Department of Chemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - R Graham Cooks
- Department of Chemistry, Purdue University, West Lafayette, IN, 47907, USA
| |
Collapse
|
17
|
Madej A, Paprocki D, Koszelewski D, Żądło-Dobrowolska A, Brzozowska A, Walde P, Ostaszewski R. Efficient Ugi reactions in an aqueous vesicle system. RSC Adv 2017. [DOI: 10.1039/c7ra03376a] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
A new, alternative route for the synthesis of a variety of α-aminoacyl amides via the four-component Ugi reaction in the presence of different surfactants in aqueous solution was investigated. High reaction yields were obtained in many cases with vesicles formed from DDAB.
Collapse
Affiliation(s)
- Arleta Madej
- Institute of Organic Chemistry
- Polish Academy of Sciences
- 01-224 Warsaw
- Poland
| | - Daniel Paprocki
- Institute of Organic Chemistry
- Polish Academy of Sciences
- 01-224 Warsaw
- Poland
| | | | | | - Anna Brzozowska
- Institute of Physical Chemistry
- Polish Academy of Sciences
- 01-224 Warsaw
- Poland
| | - Peter Walde
- Laboratory of Polymer Chemistry
- Department of Materials
- ETH Zurich
- 8093 Zurich
- Switzerland
| | | |
Collapse
|
18
|
Morris O, McMahon A, Boutin H, Grigg J, Prenant C. Automation of [(18) F]fluoroacetaldehyde synthesis: application to a recombinant human interleukin-1 receptor antagonist (rhIL-1RA). J Labelled Comp Radiopharm 2016; 59:277-83. [PMID: 27061216 PMCID: PMC4913750 DOI: 10.1002/jlcr.3393] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2015] [Revised: 01/04/2016] [Accepted: 02/29/2016] [Indexed: 01/22/2023]
Abstract
[(18) F]Fluoroacetaldehyde is a biocompatible prosthetic group that has been implemented pre-clinically using a semi-automated remotely controlled system. Automation of radiosyntheses permits use of higher levels of [(18) F]fluoride whilst minimising radiochemist exposure and enhancing reproducibility. In order to achieve full-automation of [(18) F]fluoroacetaldehyde peptide radiolabelling, a customised GE Tracerlab FX-FN with fully programmed automated synthesis was developed. The automated synthesis of [(18) F]fluoroacetaldehyde is carried out using a commercially available precursor, with reproducible yields of 26% ± 3 (decay-corrected, n = 10) within 45 min. Fully automated radiolabelling of a protein, recombinant human interleukin-1 receptor antagonist (rhIL-1RA), with [(18) F]fluoroacetaldehyde was achieved within 2 h. Radiolabelling efficiency of rhIL-1RA with [(18) F]fluoroacetaldehyde was confirmed using HPLC and reached 20% ± 10 (n = 5). Overall RCY of [(18) F]rhIL-1RA was 5% ± 2 (decay-corrected, n = 5) within 2 h starting from 35 to 40 GBq of [(18) F]fluoride. Specific activity measurements of 8.11-13.5 GBq/µmol were attained (n = 5), a near three-fold improvement of those achieved using the semi-automated approach. The strategy can be applied to radiolabelling a range of peptides and proteins with [(18) F]fluoroacetaldehyde analogous to other aldehyde-bearing prosthetic groups, yet automation of the method provides reproducibility thereby aiding translation to Good Manufacturing Practice manufacture and the transformation from pre-clinical to clinical production.
Collapse
Affiliation(s)
- Olivia Morris
- Wolfson Molecular Imaging Centre, CRUK and EPSRC Cancer Imaging Centre in Cambridge and ManchesterThe University of ManchesterManchesterUK
| | - Adam McMahon
- Wolfson Molecular Imaging Centre, CRUK and EPSRC Cancer Imaging Centre in Cambridge and ManchesterThe University of ManchesterManchesterUK
| | - Herve Boutin
- Wolfson Molecular Imaging Centre, CRUK and EPSRC Cancer Imaging Centre in Cambridge and ManchesterThe University of ManchesterManchesterUK
| | - Julian Grigg
- GE Healthcare, Life Sciences, Imaging R&DThe Grove CentreAmershamBucksUK
| | - Christian Prenant
- Wolfson Molecular Imaging Centre, CRUK and EPSRC Cancer Imaging Centre in Cambridge and ManchesterThe University of ManchesterManchesterUK
| |
Collapse
|
19
|
Ishiwata A, Taguchi Y, Lee YJ, Watanabe T, Kohda D, Ito Y. N-Glycosylation with synthetic undecaprenyl pyrophosphate-linked oligosaccharide to oligopeptides by PglB oligosaccharyltransferase from Campylobacter jejuni. Chembiochem 2015; 16:731-7. [PMID: 25688550 DOI: 10.1002/cbic.201402658] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2014] [Indexed: 11/11/2022]
Abstract
The oligosaccharyltransferase PglB from Campylobacter jejuni catalyses the N-glycosylation reaction with undecaprenyl-pyrophosphate-linked Glc1 GalNAc5 Bac1 (Und-PP-Glc1 GalNAc5 Bac1 ). Experiments using chemically synthesized donors coupled to fluorescently tagged peptides confirmed that biosynthetic intermediate Und-PP-Bac1 and Und-PP-GalNAc2 Bac1 are transferred efficiently to the Asn residue in the consensus sequence (D/E-X'-N-X-T/S, X',X≠P). The products were analyzed in detail by tandem MS to confirm their chemical structures.
Collapse
|
20
|
Fallah-Araghi A, Meguellati K, Baret JC, El Harrak A, Mangeat T, Karplus M, Ladame S, Marques CM, Griffiths AD. Enhanced chemical synthesis at soft interfaces: a universal reaction-adsorption mechanism in microcompartments. PHYSICAL REVIEW LETTERS 2014; 112:028301. [PMID: 24484045 DOI: 10.1103/physrevlett.112.028301] [Citation(s) in RCA: 164] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2013] [Indexed: 06/03/2023]
Abstract
A bimolecular synthetic reaction (imine synthesis) was performed compartmentalized in micrometer-diameter emulsion droplets. The apparent equilibrium constant (Keq) and apparent forward rate constant (k1) were both inversely proportional to the droplet radius. The results are explained by a noncatalytic reaction-adsorption model in which reactants adsorb to the droplet interface with relatively low binding energies of a few kBT, react and diffuse back to the bulk. Reaction thermodynamics is therefore modified by compartmentalization at the mesoscale--without confinement on the molecular scale--leading to a universal mechanism for improving unfavorable reactions.
Collapse
Affiliation(s)
- Ali Fallah-Araghi
- Institut de Sciences et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, CNRS UMR 7006, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France
| | - Kamel Meguellati
- Institut de Sciences et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, CNRS UMR 7006, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France
| | - Jean-Christophe Baret
- Max Planck Institute for Dynamics and Self-organization, Am Fassberg 17, D-37077 Goettingen, Germany
| | - Abdeslam El Harrak
- Raindance Technologies France, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France
| | - Thomas Mangeat
- Raindance Technologies France, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France
| | - Martin Karplus
- Institut de Sciences et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, CNRS UMR 7006, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France and Department of Chemistry and Chemical Biology, 12 Oxford Street, Harvard University, Cambridge, Massachussets, Massachusetts 02138, USA
| | - Sylvain Ladame
- Institut de Sciences et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, CNRS UMR 7006, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France and Department of Bioengineering, Imperial College London, London SW72AZ, United Kingdom
| | - Carlos M Marques
- Institut Charles Sadron, Université de Strasbourg, CNRS UPR 22, 23 rue du Loess, F-67034 Strasbourg Cedex, France
| | - Andrew D Griffiths
- Institut de Sciences et d'Ingénierie Supramoléculaires (ISIS), Université de Strasbourg, CNRS UMR 7006, 8 allée Gaspard Monge, F-67083 Strasbourg Cedex, France and École Supérieure de Physique et de Chimie Industrielles de la Ville de Paris (ESPCI ParisTech), CNRS UMR 7084, 10 rue Vauquelin, F-75231 Paris Cedex 05, France
| |
Collapse
|