1
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Andrews KG, Horton PN, Coles SJ. Programmable synthesis of organic cages with reduced symmetry. Chem Sci 2024; 15:6536-6543. [PMID: 38699263 PMCID: PMC11062111 DOI: 10.1039/d4sc00889h] [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: 02/05/2024] [Accepted: 03/31/2024] [Indexed: 05/05/2024] Open
Abstract
Integrating symmetry-reducing methods into self-assembly methodology is desirable to efficiently realise the full potential of molecular cages as hosts and catalysts. Although techniques have been explored for metal organic (coordination) cages, rational strategies to develop low symmetry organic cages remain limited. In this article, we describe rules to program the shape and symmetry of organic cage cavities by designing edge pieces that bias the orientation of the amide linkages. We apply the rules to synthesise cages with well-defined cavities, supported by evidence from crystallography, spectroscopy and modelling. Access to low-symmetry, self-assembled organic cages such as those presented, will widen the current bottleneck preventing study of organic enzyme mimics, and provide synthetic tools for novel functional material design.
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Affiliation(s)
- Keith G Andrews
- Department of Chemistry, Chemistry Research Laboratory, University of Oxford Oxford OX1 3TA UK
- Department of Chemistry, Durham University Lower Mount Joy, South Rd Durham DH1 3LE UK
| | - Peter N Horton
- UK National Crystallography Service, School of Chemistry, Faculty of Engineering and Physical Sciences, University of Southampton Southampton SO17 1BJ UK
| | - Simon J Coles
- UK National Crystallography Service, School of Chemistry, Faculty of Engineering and Physical Sciences, University of Southampton Southampton SO17 1BJ UK
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2
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Xu Z, Ye Y, Liu Y, Liu H, Jiang S. Design and assembly of porous organic cages. Chem Commun (Camb) 2024; 60:2261-2282. [PMID: 38318641 DOI: 10.1039/d3cc05091b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2024]
Abstract
Porous organic cages (POCs) represent a notable category of porous materials, showing remarkable material properties due to their inherent porosity. Unlike extended frameworks which are constructed by strong covalent or coordination bonds, POCs are composed of discrete molecular units held together by weak intermolecular forces. Their structure and chemical traits can be systematically tailored, making them suitable for a range of applications including gas storage and separation, molecular separation and recognition, catalysis, and proton and ion conduction. This review provides a comprehensive overview of POCs, covering their synthesis methods, structure and properties, computational approaches, and applications, serving as a primer for those who are new to the domain. A special emphasis is placed on the growing role of computational methods, highlighting how advanced data-driven techniques and automation are increasingly aiding the rapid exploration and understanding of POCs. We conclude by addressing the prevailing challenges and future prospects in the field.
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Affiliation(s)
- Zezhao Xu
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China.
| | - Yangzhi Ye
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China.
| | - Yilan Liu
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China.
| | - Huiyu Liu
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China.
| | - Shan Jiang
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China.
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3
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Beran GJO. Frontiers of molecular crystal structure prediction for pharmaceuticals and functional organic materials. Chem Sci 2023; 14:13290-13312. [PMID: 38033897 PMCID: PMC10685338 DOI: 10.1039/d3sc03903j] [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: 07/27/2023] [Accepted: 11/02/2023] [Indexed: 12/02/2023] Open
Abstract
The reliability of organic molecular crystal structure prediction has improved tremendously in recent years. Crystal structure predictions for small, mostly rigid molecules are quickly becoming routine. Structure predictions for larger, highly flexible molecules are more challenging, but their crystal structures can also now be predicted with increasing rates of success. These advances are ushering in a new era where crystal structure prediction drives the experimental discovery of new solid forms. After briefly discussing the computational methods that enable successful crystal structure prediction, this perspective presents case studies from the literature that demonstrate how state-of-the-art crystal structure prediction can transform how scientists approach problems involving the organic solid state. Applications to pharmaceuticals, porous organic materials, photomechanical crystals, organic semi-conductors, and nuclear magnetic resonance crystallography are included. Finally, efforts to improve our understanding of which predicted crystal structures can actually be produced experimentally and other outstanding challenges are discussed.
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Affiliation(s)
- Gregory J O Beran
- Department of Chemistry, University of California Riverside Riverside CA 92521 USA
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4
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Jose C, Sarkar M, Rajasekar P, Tewari T, Boomishankar R. Squarate-Tethered Enantiomeric Imido-Pd(II) Cages for Recognition and Separation of Chiral Organic Molecules. Inorg Chem 2023; 62:19375-19381. [PMID: 37939248 DOI: 10.1021/acs.inorgchem.3c03105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2023]
Abstract
Chiral coordination cages have emerged as an efficient platform for enantioselective processes via host-guest interactions. Here, we report an enantiomeric pair of tetrahedral cages of formula [(Pd3[PO(N(*CH(CH3)Ph)3])4(C4O4)6] supported by chiral tris(imido)phosphate trianions and squarate (C4O4)2- linkers. These cages exhibit unusual coordination isomerism for Pd(II)-linker bonds compared with the other Pd(II) cages of this family. Further, they were employed for the recognition and separation of small chiral molecules containing various functionalities. High enantioselectivities of 67 and 41 were found in the case of R-4-hydroxydihydrofuran-2(3H)-one and S-epichlorohydrin, recognized by the R-isomer of the cage. Chiral separation studies showed remarkable enantiomeric excess values of 93 and 85% for S-epichlorohydrin and R-4-benzyl-2-oxazolidinone, respectively, from their racemic mixtures. These studies showcase the potential of coordination cages for enantioselective applications.
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Affiliation(s)
- Cavya Jose
- Department of Chemistry, Indian Institute of Science Education and Research, Pune, Dr. Homi Bhabha Road, Pune 411008, India
| | - Meghamala Sarkar
- Department of Chemistry, Indian Institute of Science Education and Research, Pune, Dr. Homi Bhabha Road, Pune 411008, India
| | - Prabhakaran Rajasekar
- Department of Chemistry, Indian Institute of Science Education and Research, Pune, Dr. Homi Bhabha Road, Pune 411008, India
| | - Tanuja Tewari
- Polymer Science and Engineering Division, CSIR-National Chemical Laboratory and Academy of Scientific and Innovative Research (AcSIR), Dr. Homi Bhabha Road, Pune 411008, India
| | - Ramamoorthy Boomishankar
- Department of Chemistry, Indian Institute of Science Education and Research, Pune, Dr. Homi Bhabha Road, Pune 411008, India
- Centre of Energy Science, Indian Institute of Science Education and Research, Pune, Dr. Homi Bhabha Road, Pune 411008, India
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5
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Siddiqui SA, Shaik S, Kalita S, Dubey KD. A porphyrin-based molecular cage guided by designed local-electric field is highly selective and efficient. Chem Sci 2023; 14:10329-10339. [PMID: 37772104 PMCID: PMC10529934 DOI: 10.1039/d3sc01720f] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Accepted: 09/02/2023] [Indexed: 09/30/2023] Open
Abstract
The present work outlines a general methodology for designing efficient catalytic machineries that can easily be tweaked to meet the demands of the target reactions. This work utilizes a principle of the designed local electric field (LEF) as the driver for an efficient catalyst. It is demonstrated that by tweaking the LEF, we can catalyze the desired hydroxylation products with enantioselectivity that can be changed at will. Using computation tools, we caged a synthetic analog of heme porphyrin (HM1) and investigated the pharmaceutically relevant conversion of tetralin to tetralol, inside the modified supramolecular cage. The QM/MM calculations demonstrate a resulting catalytic efficiency with virtually absolute R-selectivity for the tetralin hydroxylation. Our calculations show that the LEF of the supramolecular cage and HM1 exert a strong electric field along the Fe-O reaction axis, which is the main driving force for enhanced reactivity. At the same time, the supramolecular cage applies a lateral LEF that regulates the enantioselectivity. We further demonstrate that swapping the charged/polar substitution in the supramolecular cage switches the lateral LEF which changes the enantioselectivity of hydroxylation from R to S.
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Affiliation(s)
- Shakir Ali Siddiqui
- Department of Chemistry, School of Natural Sciences, Shiv Nadar Institution of Eminence Delhi-NCR India
| | - Sason Shaik
- Institute of Chemistry, The Hebrew University of Jerusalem Israel Jerusalem Israel
| | - Surajit Kalita
- Department of Chemistry, School of Natural Sciences, Shiv Nadar Institution of Eminence Delhi-NCR India
| | - Kshatresh Dutta Dubey
- Department of Chemistry, School of Natural Sciences, Shiv Nadar Institution of Eminence Delhi-NCR India
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6
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Chafiq M, Chaouiki A, Ko YG. Recent Advances in Multifunctional Reticular Framework Nanoparticles: A Paradigm Shift in Materials Science Road to a Structured Future. NANO-MICRO LETTERS 2023; 15:213. [PMID: 37736827 PMCID: PMC10516851 DOI: 10.1007/s40820-023-01180-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Accepted: 07/25/2023] [Indexed: 09/23/2023]
Abstract
Porous organic frameworks (POFs) have become a highly sought-after research domain that offers a promising avenue for developing cutting-edge nanostructured materials, both in their pristine state and when subjected to various chemical and structural modifications. Metal-organic frameworks, covalent organic frameworks, and hydrogen-bonded organic frameworks are examples of these emerging materials that have gained significant attention due to their unique properties, such as high crystallinity, intrinsic porosity, unique structural regularity, diverse functionality, design flexibility, and outstanding stability. This review provides an overview of the state-of-the-art research on base-stable POFs, emphasizing the distinct pros and cons of reticular framework nanoparticles compared to other types of nanocluster materials. Thereafter, the review highlights the unique opportunity to produce multifunctional tailoring nanoparticles to meet specific application requirements. It is recommended that this potential for creating customized nanoparticles should be the driving force behind future synthesis efforts to tap the full potential of this multifaceted material category.
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Affiliation(s)
- Maryam Chafiq
- Materials Electrochemistry Group, School of Materials Science and Engineering, Yeungnam University, Gyeongsan, 38541, Republic of Korea
| | - Abdelkarim Chaouiki
- Materials Electrochemistry Group, School of Materials Science and Engineering, Yeungnam University, Gyeongsan, 38541, Republic of Korea.
| | - Young Gun Ko
- Materials Electrochemistry Group, School of Materials Science and Engineering, Yeungnam University, Gyeongsan, 38541, Republic of Korea.
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7
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Li G, Li Z, Gao L, Chen S, Wang G, Li S. Combined molecular dynamics and coordinate driving method for automatically searching complicated reaction pathways. Phys Chem Chem Phys 2023; 25:23696-23707. [PMID: 37610711 DOI: 10.1039/d3cp02443a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/24/2023]
Abstract
The combined molecular dynamics and coordinate driving (MD/CD) method is updated and generalized in this work to broaden its applications in automatically searching reaction pathways for complicated reactions. In this updated version, MD simulations are performed with the GFN's family of methods to systematically sample conformers for almost any systems with atomic numbers Z ≤ 86. The improved CD procedure is greatly accelerated by applying a pre-screening stage at the semiempirical GFN2-xTB level. An automatic module based on the Marcus theory and its improved version (the Wolynes theory) is designed to include single electron transfer (SET) processes into reaction pathways. The capabilities of this method are demonstrated by exploring the most possible reaction pathways of three experimentally reported reactions: the organophosphine-catalyzed trans phosphinoboration, the Fe(II) complex-mediated C(sp2)-H borylation reaction, and the SET-triggered deaminative radical cross-coupling reaction. Comprehensive reaction networks are obtained for all three reactions with reasonable computational costs. Detailed mechanisms for these reactions can account for the reported experimental facts.
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Affiliation(s)
- Guoao Li
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
| | - Zhenxing Li
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
| | - Liuzhou Gao
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
| | - Shengda Chen
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
| | - Guoqiang Wang
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
| | - Shuhua Li
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, New Cornerstone Science Laboratory, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, People's Republic of China.
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8
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Zhang G, Lin W, Huang F, Sessler J, Khashab NM. Industrial Separation Challenges: How Does Supramolecular Chemistry Help? J Am Chem Soc 2023; 145:19143-19163. [PMID: 37624708 DOI: 10.1021/jacs.3c06175] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/27/2023]
Abstract
The chemical industry and the chemical processes underscoring it are under intense scrutiny as the demands for the transition to more sustainable and environmentally friendly practices are increasing. Traditional industrial separation systems, such as thermally driven distillation for hydrocarbon purification, are energy intensive. The development of more energy efficient separation technologies is thus emerging as a critical need, as is the creation of new materials that may permit a transition away from classic distillation-based separations. In this Perspective, we focus on porous organic cages and macrocycles that can adsorb guest molecules selectively through various host-guest interactions and permit molecular sieving behavior at the molecular level. Specifically, we summarize the recent advances where receptor-based adsorbent materials have been shown to be effective for industrially relevant hydrocarbon separations, highlighting the underlying host-guest interactions that impart selectivity and permit the observed separations. This approach to sustainable separations is currently in its infancy. Nevertheless, several receptor-based adsorbent materials with extrinsic/intrinsic voids or special functional groups have been reported in recent years that can selectively capture various targeted guest molecules. We believe that the understanding of the interactions that drive selectivity at a molecular level accruing from these initial systems will permit an ever-more-effective "bottom-up" design of tailored molecular sieves that, in due course, will allow adsorbent material-based approaches to separations to transition from the laboratory into an industrial setting.
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Affiliation(s)
- Gengwu Zhang
- Smart Hybrid Materials Laboratory (SHMs), Chemistry Program, Advanced Membranes and Porous Materials Center, Physical Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia
| | - Weibin Lin
- Smart Hybrid Materials Laboratory (SHMs), Chemistry Program, Advanced Membranes and Porous Materials Center, Physical Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia
| | - Feihe Huang
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou 310027, P. R. China
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou, 311215, P. R. China
| | - Jonathan Sessler
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Niveen M Khashab
- Smart Hybrid Materials Laboratory (SHMs), Chemistry Program, Advanced Membranes and Porous Materials Center, Physical Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia
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9
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Abstract
Porous organic cages (POCs) are a relatively new class of low-density crystalline materials that have emerged as a versatile platform for investigating molecular recognition, gas storage and separation, and proton conduction, with potential applications in the fields of porous liquids, highly permeable membranes, heterogeneous catalysis, and microreactors. In common with highly extended porous structures, such as metal-organic frameworks (MOFs), covalent organic frameworks (COFs), and porous organic polymers (POPs), POCs possess all of the advantages of highly specific surface areas, porosities, open pore channels, and tunable structures. In addition, they have discrete molecular structures and exhibit good to excellent solubilities in common solvents, enabling their solution dispersibility and processability─properties that are not readily available in the case of the well-established, insoluble, extended porous frameworks. Here, we present a critical review summarizing in detail recent progress and breakthroughs─especially during the past five years─of all the POCs while taking a close look at their strategic design, precise synthesis, including both irreversible bond-forming chemistry and dynamic covalent chemistry, advanced characterization, and diverse applications. We highlight representative POC examples in an attempt to gain some understanding of their structure-function relationships. We also discuss future challenges and opportunities in the design, synthesis, characterization, and application of POCs. We anticipate that this review will be useful to researchers working in this field when it comes to designing and developing new POCs with desired functions.
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Affiliation(s)
- Xinchun Yang
- Faculty of Materials Science and Energy Engineering/Institute of Technology for Carbon Neutrality, Shenzhen Institute of Advanced Technology (SIAT), Chinese Academy of Sciences (CAS), Shenzhen 518055, China
- Shenzhen Key Laboratory of Energy Materials for Carbon Neutrality, Shenzhen Institute of Advanced Technology (SIAT), Chinese Academy of Sciences (CAS), Shenzhen 518055, China
| | - Zakir Ullah
- Convergence Research Center for Insect Vectors, Division of Life Sciences, College of Life Sciences and Bioengineering, Incheon National University, Incheon 22012, South Korea
| | - J Fraser Stoddart
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- School of Chemistry, University of New South Wales, Sydney, New South Wales 2052, Australia
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou 310027, China
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou 311215, China
| | - Cafer T Yavuz
- Oxide & Organic Nanomaterials for Energy & Environment Laboratory, Physical Science & Engineering (PSE), King Abdullah University of Science and Technology (KAUST), 4700 KAUST, Thuwal 23955, Saudi Arabia
- Advanced Membranes & Porous Materials Center, PSE, KAUST, 4700 KAUST, Thuwal 23955, Saudi Arabia
- KAUST Catalysis Center, PSE, KAUST, 4700 KAUST, Thuwal 23955, Saudi Arabia
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10
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Lee S, Nam D, Yang DC, Choe W. Unveiling Hidden Zeolitic Imidazolate Frameworks Guided by Intuition-Based Geometrical Factors. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023; 19:e2300036. [PMID: 36759958 DOI: 10.1002/smll.202300036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Revised: 01/20/2023] [Indexed: 06/18/2023]
Abstract
Herein, synthesizable candidate topologies to form zeolitic imidazolate frameworks (ZIFs) are efficiently identified from over 2 000 000 hypothetical structures in zeolite databases, using structural descriptors extracted from known ZIFs. A combination of intuition-based structural descriptors, such as ring patterns, node numbers, and TOT bridging angles (T = tetrahedral metal nodes in zeolites and ZIFs), is used as data filters to eliminate topologies infeasible for ZIF formation. Carefully chosen structural descriptors facilitate the prediction of plausible ZIF topologies. To investigate potential applications as porous ZIFs, this work performs hydrogen adsorption screening and suggested notable target ZIFs. The collection of new plausible ZIFs, derived from the combined descriptors, will be a structural blueprint for synthetic chemists.
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Affiliation(s)
- Soochan Lee
- Department of Chemistry, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, Republic of Korea
| | - Dongsik Nam
- Department of Chemistry, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, Republic of Korea
| | - David ChangMo Yang
- Department of Chemistry, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, Republic of Korea
| | - Wonyoung Choe
- Department of Chemistry, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, Republic of Korea
- Graduate School of Carbon Neutrality, Ulsan National Institute of Science and Technology, 50 UNIST-gil, Ulsan, 44919, Republic of Korea
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11
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Li A, Bueno-Perez R, Fairen-Jimenez D. Identifying porous cage subsets in the Cambridge Structural Database using topological data analysis. Chem Sci 2022; 13:13507-13523. [PMID: 36507160 PMCID: PMC9682994 DOI: 10.1039/d2sc03171j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Accepted: 10/30/2022] [Indexed: 11/05/2022] Open
Abstract
As rationally designable materials, the variety and number of synthesised metal-organic cages (MOCs) and organic cages (OCs) are expected to grow in the Cambridge Structural Database (CSD). In this regard, two of the most important questions are, which structures are already present in the CSD and how can they be identified? Here, we present a cage mining methodology based on topological data analysis and a combination of supervised and unsupervised learning that led to the derivation of - to the best of our knowledge - the first and only MOC dataset of 1839 structures and the largest experimental OC dataset of 7736 cages, as of March 2022. We illustrate the use of such datasets with a high-throughput screening of MOCs and OCs for xenon/krypton separation, important gases in multiple industries, including healthcare.
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Affiliation(s)
- Aurelia Li
- The Adsorption & Advanced Materials Laboratory (AML), Department of Chemical Engineering & Biotechnology, University of CambridgePhilippa Fawcett DriveCambridge CB3 0ASUK
| | - Rocio Bueno-Perez
- The Adsorption & Advanced Materials Laboratory (AML), Department of Chemical Engineering & Biotechnology, University of CambridgePhilippa Fawcett DriveCambridge CB3 0ASUK
| | - David Fairen-Jimenez
- The Adsorption & Advanced Materials Laboratory (AML), Department of Chemical Engineering & Biotechnology, University of CambridgePhilippa Fawcett DriveCambridge CB3 0ASUK
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12
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Montà-González G, Sancenón F, Martínez-Máñez R, Martí-Centelles V. Purely Covalent Molecular Cages and Containers for Guest Encapsulation. Chem Rev 2022; 122:13636-13708. [PMID: 35867555 PMCID: PMC9413269 DOI: 10.1021/acs.chemrev.2c00198] [Citation(s) in RCA: 40] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
Cage compounds offer unique binding pockets similar to enzyme-binding sites, which can be customized in terms of size, shape, and functional groups to point toward the cavity and many other parameters. Different synthetic strategies have been developed to create a toolkit of methods that allow preparing tailor-made organic cages for a number of distinct applications, such as gas separation, molecular recognition, molecular encapsulation, hosts for catalysis, etc. These examples show the versatility and high selectivity that can be achieved using cages, which is impossible by employing other molecular systems. This review explores the progress made in the field of fully organic molecular cages and containers by focusing on the properties of the cavity and their application to encapsulate guests.
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Affiliation(s)
- Giovanni Montà-González
- Instituto
Interuniversitario de Investigación de Reconocimiento Molecular
y Desarrollo Tecnológico (IDM) Universitat
Politècnica de València, Universitat de València. Camino de Vera, s/n 46022, Valencia, Spain
| | - Félix Sancenón
- Instituto
Interuniversitario de Investigación de Reconocimiento Molecular
y Desarrollo Tecnológico (IDM) Universitat
Politècnica de València, Universitat de València. Camino de Vera, s/n 46022, Valencia, Spain,CIBER
de Bioingeniería, Biomateriales y Nanomedicina, Instituto de Salud Carlos III, 28029 Madrid, Spain,Centro
de Investigación Príncipe Felipe, Unidad Mixta UPV-CIPF
de Investigación de Mecanismos de Enfermedades y Nanomedicina,
Valencia, Universitat Politècnica
de València, 46012 Valencia, Spain,Instituto
de Investigación Sanitaria la Fe, Unidad Mixta de Investigación
en Nanomedicina y Sensores, Universitat
Politènica de València, 46026 València, Spain,Departamento
de Química, Universitat Politècnica
de València, 46022 Valencia, Spain
| | - Ramón Martínez-Máñez
- Instituto
Interuniversitario de Investigación de Reconocimiento Molecular
y Desarrollo Tecnológico (IDM) Universitat
Politècnica de València, Universitat de València. Camino de Vera, s/n 46022, Valencia, Spain,CIBER
de Bioingeniería, Biomateriales y Nanomedicina, Instituto de Salud Carlos III, 28029 Madrid, Spain,Centro
de Investigación Príncipe Felipe, Unidad Mixta UPV-CIPF
de Investigación de Mecanismos de Enfermedades y Nanomedicina,
Valencia, Universitat Politècnica
de València, 46012 Valencia, Spain,Instituto
de Investigación Sanitaria la Fe, Unidad Mixta de Investigación
en Nanomedicina y Sensores, Universitat
Politènica de València, 46026 València, Spain,Departamento
de Química, Universitat Politècnica
de València, 46022 Valencia, Spain,R.M.-M.: email,
| | - Vicente Martí-Centelles
- Instituto
Interuniversitario de Investigación de Reconocimiento Molecular
y Desarrollo Tecnológico (IDM) Universitat
Politècnica de València, Universitat de València. Camino de Vera, s/n 46022, Valencia, Spain,V.M.-C.:
email,
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13
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Chen Y, Xia L, Li G. The progress on porous organic materials for chiral separation. J Chromatogr A 2022; 1677:463341. [PMID: 35870277 DOI: 10.1016/j.chroma.2022.463341] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Revised: 07/02/2022] [Accepted: 07/12/2022] [Indexed: 11/25/2022]
Abstract
Chiral compounds have similar structures and properties, but their pharmacological action is very different or even opposite. Therefore, the separation of chiral compounds has great significance in pharmaceutical and agriculture. Porous organic materials are novel crystalline porous materials, which possess high surface area, controllable pore size, and favorable functionalization. Therefore, porous organic materials are considered to be an ideal material for chiral separation. In this review, we summarized the progress of chiral porous organic materials for chiral separation in recent years. Furthermore, the applications of chiral porous organic materials as chiral separation medias (chromatography stationary phases and membrane materials) in enantioseparation were highlighted. Finally, the remaining challenges and future directions for porous organic materials in chiral separation were also briefly outlined further to promote the development of porous organic materials in chiral separation.
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Affiliation(s)
- Yanlong Chen
- School of Pharmaceutical Sciences, Guangzhou University of Chinese Medicine, Guangzhou, 510006, China; School of Chemistry, Sun Yat-sen University, Guangzhou, 510006, China
| | - Ling Xia
- School of Chemistry, Sun Yat-sen University, Guangzhou, 510006, China
| | - Gongke Li
- School of Chemistry, Sun Yat-sen University, Guangzhou, 510006, China.
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14
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Rimsza JM, Nenoff TM. Porous Liquids: Computational Design for Targeted Gas Adsorption. ACS APPLIED MATERIALS & INTERFACES 2022; 14:18005-18015. [PMID: 35420771 DOI: 10.1021/acsami.2c03108] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
In this Perspective, we present the unique gas adsorption capabilities of porous liquids (PLs) and the value of complex computational methods in the design of PL compositions. Traditionally, liquids only contain transient pore space between molecules that limit long-term gas capture. However, PLs are stable fluids that that contain permanent porosity due to the combination of a rigid porous host structure and a solvent. PLs exhibit remarkable adsorption and separation properties, including increased solubility and selectivity. The unique gas adsorption properties of PLs are based on their structure, which exhibits multiple gas binding sites in the pore and on the cage surface, varying binding mechanisms including hydrogen-bonding and π-π interactions, and selective diffusion in the solvent. Tunable PL compositions will require fundamental investigations of competitive gas binding mechanisms, thermal effects on binding site stability, and the role of nanoconfinement on gas and solvent diffusion that can be accelerated through molecular modeling. With these new insights PLs promise to be an exceptional material class with tunable properties for targeted gas adsorption.
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Affiliation(s)
- Jessica M Rimsza
- Geochemistry Department, Sandia National Laboratories, Albuquerque 87185-5820, New Mexico, United States
| | - Tina M Nenoff
- Material, Physical, and Chemical Sciences, Sandia National Laboratories, Albuquerque 87185-5820, New Mexico, United States
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15
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Chang CW, Borne I, Lawler RM, Yu Z, Jang SS, Lively RP, Sholl DS. Accelerating Solvent Selection for Type II Porous Liquids. J Am Chem Soc 2022; 144:4071-4079. [PMID: 35170940 DOI: 10.1021/jacs.1c13049] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Type II porous liquids, comprising intrinsically porous molecules dissolved in a liquid solvent, potentially combine the adsorption properties of porous adsorbents with the handling advantages of liquids. Previously, discovery of appropriate solvents to make porous liquids had been limited to direct experimental tests. We demonstrate an efficient screening approach for this task that uses COSMO-RS calculations, predictions of solvent pKa values from a machine-learning model, and several other features and apply this approach to select solvents from a library of more than 11,000 compounds. This method is shown to give qualitative agreement with experimental observations for two molecular cages, CC13 and TG-TFB-CHEDA, identifying solvents with higher solubility for these molecules than had previously been known. Ultimately, the algorithm streamlines the downselection of suitable solvents for porous organic cages to enable more rapid discovery of Type II porous liquids.
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Affiliation(s)
- Chao-Wen Chang
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Isaiah Borne
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Robin M Lawler
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Zhenzi Yu
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Seung Soon Jang
- School of Materials Science and Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - Ryan P Lively
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States
| | - David S Sholl
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, United States.,Oak Ridge National Laboratory, Oak Ridge, Tennessee 37839, United States
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16
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Kunde T, Pausch T, Schmidt BM. Porous Organic Compounds – Small Pores on the Rise. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100892] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Tom Kunde
- Institut für Organische Chemie und Makromolekulare Chemie Heinrich-Heine-Universität Düsseldorf Universitätsstraße 1 40225 Düsseldorf Germany
| | - Tobias Pausch
- Institut für Organische Chemie und Makromolekulare Chemie Heinrich-Heine-Universität Düsseldorf Universitätsstraße 1 40225 Düsseldorf Germany
| | - Bernd M. Schmidt
- Institut für Organische Chemie und Makromolekulare Chemie Heinrich-Heine-Universität Düsseldorf Universitätsstraße 1 40225 Düsseldorf Germany
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17
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McKee NA, McKee ML. Evaluation of packing single and multiple atoms and molecules in the porous organic cage CC3- R. Phys Chem Chem Phys 2021; 23:19255-19268. [PMID: 34524296 DOI: 10.1039/d1cp01934a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
The absorption of multiple atoms and molecules, including Kr, Xe, CH4, CO2, C2H2, H2O, and SF6, within CC3-R, a Porous Organic Cage (POC), was calculated and analyzed. The CC3-R molecule has one central cavity and four window sites. Most adsorbents were modeled with either one unit in the central cavity, four units in the window sites, or with five units in both sites. For Xe, the most favorable site was the central one. The CO2 molecule binds about 3 kcal mol-1 in free energy more strongly than CH4 in the central cavity of CC3-R at 300 K which may be enough to allow useful discrimination. Four C2H2 units and four CO2 units are calculated to bind similarly inside CC3-R (ΔH(298 K) = -8.6 and -7.7 kcal mol-1 per unit, respectively). Since H2O is smaller, more waters can easily fit inside. For twelve water molecules, the binding enthalpy per water is ΔH(298 K) = -16.4 kcal mol-1. For comparison, the binding enthalpy of (H2O)12 at the same level of theory (B3LYP/6-31G(d,p)-D3BJ//M06-2X/6-31G(d)) is predicted to be -12.3 kcal mol-1 per water. Finally, the dimerization of CC3-R and the association of CC3-R with CC3-S was studied as well as 3 to 9 iodine atoms enclosed in CC3-R.
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Affiliation(s)
- Nida A McKee
- Department of Chemistry and Biochemistry, Auburn, AL 36849, USA.
| | - Michael L McKee
- Department of Chemistry and Biochemistry, Auburn, AL 36849, USA.
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18
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Ivanova S, Köster E, Holstein JJ, Keller N, Clever GH, Bein T, Beuerle F. Isoreticular Crystallization of Highly Porous Cubic Covalent Organic Cage Compounds*. Angew Chem Int Ed Engl 2021; 60:17455-17463. [PMID: 33905140 PMCID: PMC8362030 DOI: 10.1002/anie.202102982] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Revised: 04/23/2021] [Indexed: 12/13/2022]
Abstract
Modular frameworks featuring well-defined pore structures in microscale domains establish tailor-made porous materials. For open molecular solids however, maintaining long-range order after desolvation is inherently challenging, since packing is usually governed by only a few supramolecular interactions. Here we report on two series of nanocubes obtained by co-condensation of two different hexahydroxy tribenzotriquinacenes (TBTQs) and benzene-1,4-diboronic acids (BDBAs) with varying linear alkyl chains in 2,5-position. n-Butyl groups at the apical position of the TBTQ vertices yielded soluble model compounds, which were analyzed by mass spectrometry and NMR spectroscopy. In contrast, methyl-substituted cages spontaneously crystallized as isostructural and highly porous solids with BET surface areas and pore volumes of up to 3426 m2 g-1 and 1.84 cm3 g-1 . Single crystal X-ray diffraction and sorption measurements revealed an intricate cubic arrangement of alternating micro- and mesopores in the range of 0.97-2.2 nm that are fine-tuned by the alkyl substituents at the BDBA linker.
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Affiliation(s)
- Svetlana Ivanova
- Julius-Maximilians-Universität WürzburgInstitut für Organische ChemieAm Hubland97074WürzburgGermany
- Julius-Maximilians-Universität WürzburgCenter for Nanosystems Chemistry (CNC)Theodor-Boveri-Weg97074WürzburgGermany
| | - Eva Köster
- Julius-Maximilians-Universität WürzburgInstitut für Organische ChemieAm Hubland97074WürzburgGermany
- Julius-Maximilians-Universität WürzburgCenter for Nanosystems Chemistry (CNC)Theodor-Boveri-Weg97074WürzburgGermany
| | - Julian J. Holstein
- Technische Universität DortmundFakultät für Chemie und Chemische BiologieOtto-Hahn-Strasse 644227DortmundGermany
| | - Niklas Keller
- Ludwig-Maximilians-Universität MünchenDepartment of Chemistry & Center for NanoScience (CeNS)Butenandtstrasse 5–1381377MünchenGermany
| | - Guido H. Clever
- Technische Universität DortmundFakultät für Chemie und Chemische BiologieOtto-Hahn-Strasse 644227DortmundGermany
| | - Thomas Bein
- Ludwig-Maximilians-Universität MünchenDepartment of Chemistry & Center for NanoScience (CeNS)Butenandtstrasse 5–1381377MünchenGermany
| | - Florian Beuerle
- Julius-Maximilians-Universität WürzburgInstitut für Organische ChemieAm Hubland97074WürzburgGermany
- Julius-Maximilians-Universität WürzburgCenter for Nanosystems Chemistry (CNC)Theodor-Boveri-Weg97074WürzburgGermany
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19
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Ivanova S, Köster E, Holstein JJ, Keller N, Clever GH, Bein T, Beuerle F. Isoretikuläre Kristallisation von hochporösen kubischen kovalentorganischen Käfigverbindungen**. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202102982] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Svetlana Ivanova
- Julius-Maximilians-Universität Würzburg Institut für Organische Chemie Am Hubland 97074 Würzburg Deutschland
- Julius-Maximilians-Universität Würzburg Center for Nanosystems Chemistry (CNC) Theodor-Boveri-Weg 97074 Würzburg Deutschland
| | - Eva Köster
- Julius-Maximilians-Universität Würzburg Institut für Organische Chemie Am Hubland 97074 Würzburg Deutschland
- Julius-Maximilians-Universität Würzburg Center for Nanosystems Chemistry (CNC) Theodor-Boveri-Weg 97074 Würzburg Deutschland
| | - Julian J. Holstein
- Technische Universität Dortmund Fakultät für Chemie und Chemische Biologie Otto-Hahn-Straße 6 44227 Dortmund Deutschland
| | - Niklas Keller
- Ludwig-Maximilians-Universität München Department of Chemistry & Center for NanoScience (CeNS) Butenandtstraße 5–13 81377 München Deutschland
| | - Guido H. Clever
- Technische Universität Dortmund Fakultät für Chemie und Chemische Biologie Otto-Hahn-Straße 6 44227 Dortmund Deutschland
| | - Thomas Bein
- Ludwig-Maximilians-Universität München Department of Chemistry & Center for NanoScience (CeNS) Butenandtstraße 5–13 81377 München Deutschland
| | - Florian Beuerle
- Julius-Maximilians-Universität Würzburg Institut für Organische Chemie Am Hubland 97074 Würzburg Deutschland
- Julius-Maximilians-Universität Würzburg Center for Nanosystems Chemistry (CNC) Theodor-Boveri-Weg 97074 Würzburg Deutschland
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20
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Hua M, Wang S, Gong Y, Wei J, Yang Z, Sun J. Hierarchically Porous Organic Cages. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202100849] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Mingming Hua
- School of Chemistry and Chemical Engineering Key Laboratory of Colloid and Interface Chemistry Ministry of Education Shandong University Jinan 250100 P. R. China
| | - Shuping Wang
- School of Chemistry and Chemical Engineering Key Laboratory of Colloid and Interface Chemistry Ministry of Education Shandong University Jinan 250100 P. R. China
| | - Yanjun Gong
- School of Chemistry and Chemical Engineering Key Laboratory of Colloid and Interface Chemistry Ministry of Education Shandong University Jinan 250100 P. R. China
| | - Jingjing Wei
- School of Chemistry and Chemical Engineering Key Laboratory of Colloid and Interface Chemistry Ministry of Education Shandong University Jinan 250100 P. R. China
| | - Zhijie Yang
- School of Chemistry and Chemical Engineering Key Laboratory of Colloid and Interface Chemistry Ministry of Education Shandong University Jinan 250100 P. R. China
| | - Jian‐Ke Sun
- MOE Key Laboratory of Cluster Science School of Chemistry and Chemical Engineering Beijing Institute of Technology Beijing P. R. China
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21
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Hua M, Wang S, Gong Y, Wei J, Yang Z, Sun JK. Hierarchically Porous Organic Cages. Angew Chem Int Ed Engl 2021; 60:12490-12497. [PMID: 33694301 DOI: 10.1002/anie.202100849] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 03/09/2021] [Indexed: 11/09/2022]
Abstract
Imparting mesopores to organic cages of an intrinsic microporous nature to build up hierarchically porous cage soft materials is a grand challenge and will reshape the property and application scope of traditional organic cage molecules. Herein, we discovered how to engineer mesopores into microporous organic cages via their host-guest interactions with long chain ionic surfactants. Equally important, the ionic head of surfactants equips the supramolecularly assembled porous structures with charge-selective uptake and release function in solution. Interestingly, such hierarchically porous organic cage can serve as a nanoreactor once trapping enzymes within the cavity, which show 5-fold enhanced activity of enzymatic catalysis when compared with the free enzymes.
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Affiliation(s)
- Mingming Hua
- School of Chemistry and Chemical Engineering, Key Laboratory of Colloid and Interface Chemistry, Ministry of Education, Shandong University, Jinan, 250100, P. R. China
| | - Shuping Wang
- School of Chemistry and Chemical Engineering, Key Laboratory of Colloid and Interface Chemistry, Ministry of Education, Shandong University, Jinan, 250100, P. R. China
| | - Yanjun Gong
- School of Chemistry and Chemical Engineering, Key Laboratory of Colloid and Interface Chemistry, Ministry of Education, Shandong University, Jinan, 250100, P. R. China
| | - Jingjing Wei
- School of Chemistry and Chemical Engineering, Key Laboratory of Colloid and Interface Chemistry, Ministry of Education, Shandong University, Jinan, 250100, P. R. China
| | - Zhijie Yang
- School of Chemistry and Chemical Engineering, Key Laboratory of Colloid and Interface Chemistry, Ministry of Education, Shandong University, Jinan, 250100, P. R. China
| | - Jian-Ke Sun
- MOE Key Laboratory of Cluster Science, School of Chemistry and Chemical Engineering, Beijing Institute of Technology, Beijing, P. R. China
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22
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Maffettone PM, Banko L, Cui P, Lysogorskiy Y, Little MA, Olds D, Ludwig A, Cooper AI. Crystallography companion agent for high-throughput materials discovery. NATURE COMPUTATIONAL SCIENCE 2021; 1:290-297. [PMID: 38217168 DOI: 10.1038/s43588-021-00059-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Accepted: 03/18/2021] [Indexed: 01/15/2024]
Abstract
The discovery of new structural and functional materials is driven by phase identification, often using X-ray diffraction (XRD). Automation has accelerated the rate of XRD measurements, greatly outpacing XRD analysis techniques that remain manual, time-consuming, error-prone and impossible to scale. With the advent of autonomous robotic scientists or self-driving laboratories, contemporary techniques prohibit the integration of XRD. Here, we describe a computer program for the autonomous characterization of XRD data, driven by artificial intelligence (AI), for the discovery of new materials. Starting from structural databases, we train an ensemble model using a physically accurate synthetic dataset, which outputs probabilistic classifications-rather than absolutes-to overcome the overconfidence in traditional neural networks. This AI agent behaves as a companion to the researcher, improving accuracy and offering substantial time savings. It is demonstrated on a diverse set of organic and inorganic materials characterization challenges. This method is directly applicable to inverse design approaches and robotic discovery systems, and can be immediately considered for other forms of characterization such as spectroscopy and the pair distribution function.
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Affiliation(s)
- Phillip M Maffettone
- National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, USA.
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool, UK.
| | - Lars Banko
- Institute for Materials, Faculty of Mechanical Engineering, Ruhr University Bochum, Bochum, Germany
| | - Peng Cui
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool, UK
| | - Yury Lysogorskiy
- Interdisciplinary Centre for Advanced Materials Simulation (ICAMS), Ruhr University, Bochum, Germany
| | - Marc A Little
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool, UK
| | - Daniel Olds
- National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, USA
| | - Alfred Ludwig
- Institute for Materials, Faculty of Mechanical Engineering, Ruhr University Bochum, Bochum, Germany
| | - Andrew I Cooper
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool, UK.
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23
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Bowskill DH, Sugden IJ, Konstantinopoulos S, Adjiman CS, Pantelides CC. Crystal Structure Prediction Methods for Organic Molecules: State of the Art. Annu Rev Chem Biomol Eng 2021; 12:593-623. [PMID: 33770462 DOI: 10.1146/annurev-chembioeng-060718-030256] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The prediction of the crystal structures that a given organic molecule is likely to form is an important theoretical problem of significant interest for the pharmaceutical and agrochemical industries, among others. As evidenced by a series of six blind tests organized over the past 2 decades, methodologies for crystal structure prediction (CSP) have witnessed substantial progress and have now reached a stage of development where they can begin to be applied to systems of practical significance. This article reviews the state of the art in general-purpose methodologies for CSP, placing them within a common framework that highlights both their similarities and their differences. The review discusses specific areas that constitute the main focus of current research efforts toward improving the reliability and widening applicability of these methodologies, and offers some perspectives for the evolution of this technology over the next decade.
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Affiliation(s)
- David H Bowskill
- Molecular Systems Engineering Group, Centre for Process Systems Engineering, Department of Chemical Engineering, and Institute for Molecular Science and Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom;
| | - Isaac J Sugden
- Molecular Systems Engineering Group, Centre for Process Systems Engineering, Department of Chemical Engineering, and Institute for Molecular Science and Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom;
| | - Stefanos Konstantinopoulos
- Molecular Systems Engineering Group, Centre for Process Systems Engineering, Department of Chemical Engineering, and Institute for Molecular Science and Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom;
| | - Claire S Adjiman
- Molecular Systems Engineering Group, Centre for Process Systems Engineering, Department of Chemical Engineering, and Institute for Molecular Science and Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom;
| | - Constantinos C Pantelides
- Molecular Systems Engineering Group, Centre for Process Systems Engineering, Department of Chemical Engineering, and Institute for Molecular Science and Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom;
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24
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Zhao C, Chen L, Che Y, Pang Z, Wu X, Lu Y, Liu H, Day GM, Cooper AI. Digital navigation of energy-structure-function maps for hydrogen-bonded porous molecular crystals. Nat Commun 2021; 12:817. [PMID: 33547307 PMCID: PMC7865007 DOI: 10.1038/s41467-021-21091-w] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Accepted: 01/12/2021] [Indexed: 11/24/2022] Open
Abstract
Energy-structure-function (ESF) maps can aid the targeted discovery of porous molecular crystals by predicting the stable crystalline arrangements along with their functions of interest. Here, we compute ESF maps for a series of rigid molecules that comprise either a triptycene or a spiro-biphenyl core, functionalized with six different hydrogen-bonding moieties. We show that the positioning of the hydrogen-bonding sites, as well as their number, has a profound influence on the shape of the resulting ESF maps, revealing promising structure-function spaces for future experiments. We also demonstrate a simple and general approach to representing and inspecting the high-dimensional data of an ESF map, enabling an efficient navigation of the ESF data to identify 'landmark' structures that are energetically favourable or functionally interesting. This is a step toward the automated analysis of ESF maps, an important goal for closed-loop, autonomous searches for molecular crystals with useful functions.
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Affiliation(s)
- Chengxi Zhao
- Key Laboratory for Advanced Materials and School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK
| | - Linjiang Chen
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK.
- Key Laboratory for Advanced Materials and Joint International Research Laboratory of Precision Chemistry and Molecular Engineering, Feringa Nobel Prize Scientist Joint Research Centre, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China.
| | - Yu Che
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK
| | - Zhongfu Pang
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK
| | - Xiaofeng Wu
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK
- Key Laboratory for Advanced Materials and Joint International Research Laboratory of Precision Chemistry and Molecular Engineering, Feringa Nobel Prize Scientist Joint Research Centre, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China
| | - Yunxiang Lu
- Key Laboratory for Advanced Materials and School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China
| | - Honglai Liu
- Key Laboratory for Advanced Materials and School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China
| | - Graeme M Day
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton, UK.
| | - Andrew I Cooper
- Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, Liverpool, UK.
- Key Laboratory for Advanced Materials and Joint International Research Laboratory of Precision Chemistry and Molecular Engineering, Feringa Nobel Prize Scientist Joint Research Centre, School of Chemistry and Molecular Engineering, East China University of Science and Technology, Shanghai, China.
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25
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Gajula RK, Mohanty S, Chakraborty M, Sarkar M, Prakash MJ. An imine linked fluorescent covalent organic cage: the sensing of chloroform vapour and metal ions, and the detection of nitroaromatics. NEW J CHEM 2021. [DOI: 10.1039/d1nj00434d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Fluorescent covalent organic cage molecule (F-COC) showed enhanced emission intensity in chloroform solution and polymer matrix film form in presence of chloroform vapours.
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Affiliation(s)
- Ramesh Kumar Gajula
- Department of Chemistry
- National Institute of Technology Rourkela
- Rourkela-769008
- India
| | - Subhrajit Mohanty
- Department of Chemistry
- National Institute of Technology Rourkela
- Rourkela-769008
- India
| | - Manjari Chakraborty
- School of Chemical Sciences
- National Institute of Science Education and Research
- Bhubaneswar
- HBNI
- Bhimpur-Padanpur
| | - Moloy Sarkar
- School of Chemical Sciences
- National Institute of Science Education and Research
- Bhubaneswar
- HBNI
- Bhimpur-Padanpur
| | - M. Jaya Prakash
- Department of Chemistry
- National Institute of Technology Rourkela
- Rourkela-769008
- India
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26
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Koo J, Kim I, Kim Y, Cho D, Hwang IC, Mukhopadhyay RD, Song H, Ko YH, Dhamija A, Lee H, Hwang W, Kim S, Baik MH, Kim K. Gigantic Porphyrinic Cages. Chem 2020. [DOI: 10.1016/j.chempr.2020.10.002] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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27
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Greenaway RL, Jelfs KE. High-Throughput Approaches for the Discovery of Supramolecular Organic Cages. Chempluschem 2020; 85:1813-1823. [PMID: 32833311 DOI: 10.1002/cplu.202000445] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Revised: 07/27/2020] [Indexed: 12/21/2022]
Abstract
The assembly of complex molecules, such as organic cages, can be achieved through supramolecular and dynamic covalent strategies. Their use in a range of applications has been demonstrated, including gas uptake, molecular separations, and in catalysis. However, the targeted design and synthesis of new species for particular applications is challenging, particularly as the systems become more complex. High-throughput computation-only and experiment-only approaches have been developed to streamline the discovery process, although are still not widely implemented. Additionally, combined hybrid workflows can dramatically accelerate the discovery process and lead to the serendipitous discovery and rationalisation of new supramolecular assemblies that would not have been designed based on intuition alone. This Minireview focuses on the advances in high-throughput approaches that have been developed and applied in the discovery of supramolecular organic cages.
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Affiliation(s)
- Rebecca L Greenaway
- Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, London, W12 0BZ, United Kingdom
| | - Kim E Jelfs
- Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, London, W12 0BZ, United Kingdom
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28
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Yuan Y, Yang Y, Zhu G. Molecularly Imprinted Porous Aromatic Frameworks for Molecular Recognition. ACS CENTRAL SCIENCE 2020; 6:1082-1094. [PMID: 32724843 PMCID: PMC7379099 DOI: 10.1021/acscentsci.0c00311] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2020] [Indexed: 05/17/2023]
Abstract
Porous aromatic frameworks (PAFs) are an important class of porous materials that are well-known for their ultralarge surface areas and superb stabilities. Basically, PAF solids are constructed from periodically arranged phenyl fragments connected via C-C bonds (generally), which provide vast accessible surfaces that can be modified with functional groups and intrinsic pathways for rapid mass transfer. Molecular imprinting technology (MIT) is an effective method for producing binding sites with a specific geometry and size that complement a template object. This review focuses on the integration of MIT into PAF structures via state-of-the-art coupling chemistry to expand the application of porous materials in the fields of metal ion extraction (including the nuclear element uranium) and selective catalysis. Additionally, a concise outlook on the rational construction of molecularly imprinted porous aromatic frameworks is discussed in terms of developing next-generation porous materials for broader applications.
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29
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Cui P, Svensson Grape E, Spackman PR, Wu Y, Clowes R, Day GM, Inge AK, Little MA, Cooper AI. An Expandable Hydrogen-Bonded Organic Framework Characterized by Three-Dimensional Electron Diffraction. J Am Chem Soc 2020; 142:12743-12750. [PMID: 32597187 PMCID: PMC7467715 DOI: 10.1021/jacs.0c04885] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
A molecular crystal of a 2-D hydrogen-bonded organic framework (HOF) undergoes an unusual structural transformation after solvent removal from the crystal pores during activation. The conformationally flexible host molecule, ABTPA, adapts its molecular conformation during activation to initiate a framework expansion. The microcrystalline activated phase was characterized by three-dimensional electron diffraction (3D ED), which revealed that ABTPA uses out-of-plane anthracene units as adaptive structural anchors. These units change orientation to generate an expanded, lower density framework material in the activated structure. The porous HOF, ABTPA-2, has robust dynamic porosity (SABET = 1183 m2 g-1) and exhibits negative area thermal expansion. We use crystal structure prediction (CSP) to understand the underlying energetics behind the structural transformation and discuss the challenges facing CSP for such flexible molecules.
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Affiliation(s)
- Peng Cui
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool L7 3NY, U.K
| | - Erik Svensson Grape
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm 106 91, Sweden
| | - Peter R Spackman
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton SO17 1BJ, U.K.,Leverhulme Research Centre for Functional Materials Design, University of Liverpool, Liverpool L7 3NY, U.K
| | - Yue Wu
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool L7 3NY, U.K
| | - Rob Clowes
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool L7 3NY, U.K
| | - Graeme M Day
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton SO17 1BJ, U.K.,Leverhulme Research Centre for Functional Materials Design, University of Liverpool, Liverpool L7 3NY, U.K
| | - A Ken Inge
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm 106 91, Sweden
| | - Marc A Little
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool L7 3NY, U.K
| | - Andrew I Cooper
- Department of Chemistry and Materials Innovation Factory, University of Liverpool, Liverpool L7 3NY, U.K.,Leverhulme Research Centre for Functional Materials Design, University of Liverpool, Liverpool L7 3NY, U.K
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30
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Liu M, Zhang L, Little MA, Kapil V, Ceriotti M, Yang S, Ding L, Holden DL, Balderas-Xicohténcatl R, He D, Clowes R, Chong SY, Schütz G, Chen L, Hirscher M, Cooper AI. Barely porous organic cages for hydrogen isotope separation. Science 2020; 366:613-620. [PMID: 31672893 DOI: 10.1126/science.aax7427] [Citation(s) in RCA: 140] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Accepted: 10/10/2019] [Indexed: 01/18/2023]
Abstract
The separation of hydrogen isotopes for applications such as nuclear fusion is a major challenge. Current technologies are energy intensive and inefficient. Nanoporous materials have the potential to separate hydrogen isotopes by kinetic quantum sieving, but high separation selectivity tends to correlate with low adsorption capacity, which can prohibit process scale-up. In this study, we use organic synthesis to modify the internal cavities of cage molecules to produce hybrid materials that are excellent quantum sieves. By combining small-pore and large-pore cages together in a single solid, we produce a material with optimal separation performance that combines an excellent deuterium/hydrogen selectivity (8.0) with a high deuterium uptake (4.7 millimoles per gram).
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Affiliation(s)
- Ming Liu
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Linda Zhang
- Max Planck Institute for Intelligent Systems, Heisenbergstr. 3, 70569 Stuttgart, Germany
| | - Marc A Little
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Venkat Kapil
- Laboratory of Computational Science and Modeling, Institute of Materials, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Michele Ceriotti
- Laboratory of Computational Science and Modeling, Institute of Materials, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Siyuan Yang
- Department of Chemistry, Xi'an JiaoTong-Liverpool University, 111 Ren'ai Road, Suzhou Dushu Lake Higher Education Town, Jiangsu Province, 215123, China
| | - Lifeng Ding
- Department of Chemistry, Xi'an JiaoTong-Liverpool University, 111 Ren'ai Road, Suzhou Dushu Lake Higher Education Town, Jiangsu Province, 215123, China
| | - Daniel L Holden
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | | | - Donglin He
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Rob Clowes
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Samantha Y Chong
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Gisela Schütz
- Max Planck Institute for Intelligent Systems, Heisenbergstr. 3, 70569 Stuttgart, Germany
| | - Linjiang Chen
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK.,Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
| | - Michael Hirscher
- Max Planck Institute for Intelligent Systems, Heisenbergstr. 3, 70569 Stuttgart, Germany.
| | - Andrew I Cooper
- Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK. .,Leverhulme Research Centre for Functional Materials Design, Materials Innovation Factory and Department of Chemistry, University of Liverpool, 51 Oxford Street, Liverpool, L7 3NY, UK
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31
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Zhou Y, Jie K, Zhao R, Huang F. Supramolecular-Macrocycle-Based Crystalline Organic Materials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2020; 32:e1904824. [PMID: 31535778 DOI: 10.1002/adma.201904824] [Citation(s) in RCA: 81] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 08/27/2019] [Indexed: 06/10/2023]
Abstract
Supramolecular macrocycles are well known as guest receptors in supramolecular chemistry, especially host-guest chemistry. In addition to their wide applications in host-guest chemistry and related areas, macrocycles have also been employed to construct crystalline organic materials (COMs) owing to their particular structures that combine both rigidity and adaptivity. There are two main types of supramolecular-macrocycle-based COMs: those constructed from macrocycles themselves and those prepared from macrocycles with other organic linkers. This review summarizes recent developments in supramolecular-macrocycle-based COMs, which are categorized by various types of macrocycles, including cyclodextrins, calixarenes, resorcinarenes, pyrogalloarenes, cucurbiturils, pillararenes, and others. Effort is made to focus on the structures of supramolecular-macrocycle-based COMs and their structure-function relationships. In addition, the application of supramolecular-macrocycle-based COMs in gas storage or separation, molecular separation, solid-state electrolytes, proton conduction, iodine capture, water or environmental treatment, etc., are also presented. Finally, perspectives and future challenges in the field of supramolecular-macrocycle-based COMs are discussed.
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Affiliation(s)
- Yujuan Zhou
- State Key Laboratory of Chemical Engineering, Department of Chemistry, Center for Chemistry of High-Performance & Novel Materials, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Kecheng Jie
- State Key Laboratory of Chemical Engineering, Department of Chemistry, Center for Chemistry of High-Performance & Novel Materials, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Run Zhao
- State Key Laboratory of Chemical Engineering, Department of Chemistry, Center for Chemistry of High-Performance & Novel Materials, Zhejiang University, Hangzhou, 310027, P. R. China
| | - Feihe Huang
- State Key Laboratory of Chemical Engineering, Department of Chemistry, Center for Chemistry of High-Performance & Novel Materials, Zhejiang University, Hangzhou, 310027, P. R. China
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32
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Li Y, Wang H, Wang C, Xu J, Ma S, Ou J, Zhang J, Li G, Wei Y, Ye M. Atomically Precise Structure Determination of Porous Organic Cage from Ab Initio PXRD Structure Analysis: Its Molecular Click Postfunctionalization and CO 2 Capture Application. ACS APPLIED MATERIALS & INTERFACES 2020; 12:17815-17823. [PMID: 32216256 DOI: 10.1021/acsami.0c00648] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
A novel porous organic cage (POC) was prepared via condensation reaction between 1,3,5-triformylbenzene (TFB) and (1R,2R)-4-cyclohexene-1,2-diamine (CHEDA). This POC could pack in either an amorphous structure or a crystalline one. Atomically precise structure determination of POC was achieved through ab initio powder X-ray diffraction (PXRD) structure analysis in the chiral trigonal space group R3. The same atomically precise structure determination of POC from single-crystal X-ray diffraction (SXRD) structure analysis could be obtained independently with a slight difference in cell parameter, indicating that the refinement method through ab initio PXRD structure analysis is reliable and may serve as an essential method for atomically precise structure determination. The cage could adsorb up to 8 mmol/g CO2 at 298 K and 1 bar. Furthermore, 1-thioglycerol and 1-octadecanethiol were chosen to prove that postmodification of this POC was flexible. After post-synthetic modification (PSM) via highly efficient photoinitiated thiol-ene click reaction, the products still kept porous with relatively higher special surface area (337 m2/g of 5T and 156 m2/g of 5O) than mostly reported cages via the reduced-amine approach.
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Affiliation(s)
- Ya Li
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- Key Laboratory of Synthetic and Natural Function Molecule Chemistry of Ministry of Education, College of Chemistry and Materials Science, Northwest University, Xi'an 710069, China
| | - Hongwei Wang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- State Key Laboratory Cultivation Base, Shandong Provincial Key Laboratory of Ophthalmology, Shandong Eye Institute, Shandong First Medical University & Shandong Academy of Medical Sciences, Qingdao 266071, China
| | - Chang Wang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Junwen Xu
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shujuan Ma
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- Key Laboratory of Synthetic and Natural Function Molecule Chemistry of Ministry of Education, College of Chemistry and Materials Science, Northwest University, Xi'an 710069, China
| | - Junjie Ou
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jiangwei Zhang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Gao Li
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Yinmao Wei
- Key Laboratory of Synthetic and Natural Function Molecule Chemistry of Ministry of Education, College of Chemistry and Materials Science, Northwest University, Xi'an 710069, China
| | - Mingliang Ye
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
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33
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Ghalami Z, Ghoulipour V, Khanchi AR. Adsorption and sequential thermal release of F 2 , Cl 2 , and Br 2 molecules by a porous organic cage material (CC3-R): Molecular dynamics and grand-canonical Monte Carlo simulations. J Comput Chem 2020; 41:949-957. [PMID: 31891419 DOI: 10.1002/jcc.26142] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2019] [Revised: 12/01/2019] [Accepted: 12/20/2019] [Indexed: 11/07/2022]
Abstract
The adsorption-desorption behavior of fluorine, chlorine, and bromine molecules onto a crystalline porous organic cage, namely CC3-R was calculated at different temperatures using molecular dynamics (MD) and grand-canonical Monte Carlo (GCMC) simulations. Self-diffusion coefficients, radial distribution functions (RDF), and adsorption isotherms were calculated for this purpose. The results show that CC3-R has varied capacities to capture these halogens at ambient and high temperatures, so that the thermal release of fluorine is completed with increasing temperature up to around 70°C and chlorine molecules remain at the CC3-R surface up to 100°C and all bromine molecules are removed from the CC3-R surface at 200°C. We found that bromine self-diffusion was almost independent of temperature between 0 and 100°C in contrast to fluorine and chlorine. Among different diffusion regimes, Knudsen diffusion appears to have an important role in the adsorption of heavy halogens at higher temperatures.
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Affiliation(s)
- Zahra Ghalami
- Faculty of Chemistry, Kharazmi University, Tehran, Iran
| | | | - Ali Reza Khanchi
- Nuclear Science and Technology Research Institute, AEOI, Tehran, Iran
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34
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Egleston BD, Luzyanin KV, Brand MC, Clowes R, Briggs ME, Greenaway RL, Cooper AI. Controlling Gas Selectivity in Molecular Porous Liquids by Tuning the Cage Window Size. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201914037] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Benjamin D. Egleston
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | | | - Michael C. Brand
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Rob Clowes
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Michael E. Briggs
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Rebecca L. Greenaway
- Department of ChemistryUniversity of Liverpool Crown Street Liverpool L69 7ZD UK
| | - Andrew I. Cooper
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
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35
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Egleston BD, Luzyanin KV, Brand MC, Clowes R, Briggs ME, Greenaway RL, Cooper AI. Controlling Gas Selectivity in Molecular Porous Liquids by Tuning the Cage Window Size. Angew Chem Int Ed Engl 2020; 59:7362-7366. [DOI: 10.1002/anie.201914037] [Citation(s) in RCA: 40] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Indexed: 12/31/2022]
Affiliation(s)
- Benjamin D. Egleston
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | | | - Michael C. Brand
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Rob Clowes
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Michael E. Briggs
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
| | - Rebecca L. Greenaway
- Department of ChemistryUniversity of Liverpool Crown Street Liverpool L69 7ZD UK
| | - Andrew I. Cooper
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool Oxford Street Liverpool L7 3NY UK
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36
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37
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Gajula RK, Kishor R, Prakash. MJ. Imine‐Linked Covalent Organic Cage Porous Crystals for CO
2
Adsorption. ChemistrySelect 2019. [DOI: 10.1002/slct.201903781] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Ramesh Kumar Gajula
- Department of ChemistryNational Institute of Technology Rourkela Rourkela- 769008, Odisha India
| | - Rupak Kishor
- Department of Chemical Engineering, B.I.T. Sindri Dhanbad, Jharkhand- 828123 India
| | - M. Jaya Prakash.
- Department of ChemistryNational Institute of Technology Rourkela Rourkela- 769008, Odisha India
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38
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Zhang J, Xie S, Zi M, Yuan L. Recent advances of application of porous molecular cages for enantioselective recognition and separation. J Sep Sci 2019; 43:134-149. [DOI: 10.1002/jssc.201900762] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Revised: 09/15/2019] [Accepted: 09/27/2019] [Indexed: 12/20/2022]
Affiliation(s)
- Jun‐Hui Zhang
- Department of ChemistryYunnan Normal University Kunming P. R. China
| | - Sheng‐Ming Xie
- Department of ChemistryYunnan Normal University Kunming P. R. China
| | - Min Zi
- Department of ChemistryYunnan Normal University Kunming P. R. China
| | - Li‐Ming Yuan
- Department of ChemistryYunnan Normal University Kunming P. R. China
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39
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From Concept to Crystals via Prediction: Multi‐Component Organic Cage Pots by Social Self‐Sorting. Angew Chem Int Ed Engl 2019; 58:16275-16281. [DOI: 10.1002/anie.201909237] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2019] [Revised: 08/29/2019] [Indexed: 12/11/2022]
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40
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Greenaway RL, Santolini V, Pulido A, Little MA, Alston BM, Briggs ME, Day GM, Cooper AI, Jelfs KE. From Concept to Crystals via Prediction: Multi‐Component Organic Cage Pots by Social Self‐Sorting. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201909237] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Rebecca L. Greenaway
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool 51 Oxford Street Liverpool L7 3NY UK
| | - Valentina Santolini
- Department of ChemistryImperial College LondonMolecular Sciences Research Hub White City Campus, Wood Lane London W12 0BZ UK
| | - Angeles Pulido
- School of ChemistryUniversity of Southampton Highfield Southampton SO17 1BJ UK
- Current address: The Cambridge Crystallographic Data Centre 12 Union Road Cambridge CB2 1EZ UK
| | - Marc A. Little
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool 51 Oxford Street Liverpool L7 3NY UK
| | - Ben M. Alston
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool 51 Oxford Street Liverpool L7 3NY UK
| | - Michael E. Briggs
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool 51 Oxford Street Liverpool L7 3NY UK
| | - Graeme M. Day
- School of ChemistryUniversity of Southampton Highfield Southampton SO17 1BJ UK
| | - Andrew I. Cooper
- Department of Chemistry and Materials Innovation FactoryUniversity of Liverpool 51 Oxford Street Liverpool L7 3NY UK
| | - Kim E. Jelfs
- Department of ChemistryImperial College LondonMolecular Sciences Research Hub White City Campus, Wood Lane London W12 0BZ UK
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41
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Yuan Y, Meng Q, Faheem M, Yang Y, Li Z, Wang Z, Deng D, Sun F, He H, Huang Y, Sha H, Zhu G. A Molecular Coordination Template Strategy for Designing Selective Porous Aromatic Framework Materials for Uranyl Capture. ACS CENTRAL SCIENCE 2019; 5:1432-1439. [PMID: 31482126 PMCID: PMC6716130 DOI: 10.1021/acscentsci.9b00494] [Citation(s) in RCA: 60] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2019] [Indexed: 05/22/2023]
Abstract
Uranium capture from seawater could solve increasing energy demand and enable a much needed relaxing from fossil fuels. Low concentration (∼3 ppb), competing cations (especially vanadium) and pH-dependent speciation prohibit highly efficient uranium uptake. Despite intensive research, selective extraction of uranyl ions over vanadyl units remains a tremendous challenge. Here, we adopted a molecular coordination template strategy to design a uranyl-specific bis-salicylaldoxime entity and decorated it into a highly porous aromatic framework (PAF-1) by programmable assembly. The superstructure (MISS-PAF-1) gives a strong affinity that removes 99.97% of uranium in 120 min. Notably, it binds to the uranyl ion at least 100 times more selectively than 14 different cations tested, including the vanadyl ion, in simulated seawater at ambient pH. Real seawater samples collected from the Bohai Sea achieve 5.79 mg g-1 of uranium capacity over 56 days without PAF degradation, exceeding a 4-fold higher amount than commercial adsorbents.
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Affiliation(s)
- Ye Yuan
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Qinghao Meng
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Muhammad Faheem
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Yajie Yang
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Zhangnan Li
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Zeyu Wang
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Dan Deng
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
| | - Fuxing Sun
- State
Key Laboratory of Inorganic Synthesis and Preparative Chemistry, College
of Chemistry, Jilin University, Changchun 130012, P. R. China
| | - Hongming He
- Key
Laboratory of Inorganic−Organic Hybrid Functional Material,
Chemistry, Ministry of Education, College of Chemistry, Tianjin Normal University, Tianjin 300387, P. R. China
| | - Yihan Huang
- Department of Materials Science and
Engineering and Department of Chemical Engineering, University
of California, Davis, Davis, California 95616, United States
| | - Haoyan Sha
- Department of Materials Science and
Engineering and Department of Chemical Engineering, University
of California, Davis, Davis, California 95616, United States
| | - Guangshan Zhu
- Key
Laboratory of Polyoxometalate Science of Ministry of Education, Northeast Normal University, Changchun 130024, P. R. China
- E-mail:
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42
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Yuan Y, Zhu G. Porous Aromatic Frameworks as a Platform for Multifunctional Applications. ACS CENTRAL SCIENCE 2019; 5:409-418. [PMID: 30937368 PMCID: PMC6439448 DOI: 10.1021/acscentsci.9b00047] [Citation(s) in RCA: 95] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2019] [Indexed: 05/20/2023]
Abstract
Porous aromatic frameworks (PAFs), which are well-known for their large surface areas, associated porosity, diverse structures, and superb stability, have recently attracted broad interest. Taking advantage of widely available building blocks and various coupling strategies, customized porous architectures can be prepared exclusively through covalent bonding to satisfy necessary requirements. In addition, PAFs are composed of phenyl-ring-derived fragments that are easily modified with desired functional groups with the help of established synthetic chemistry techniques. On the basis of material design and preparative chemistry, this review mainly focuses on recent advances in the structural and chemical characteristics of PAFs for potential utilizations, including molecule storage, gas separation, catalysis, and ion extraction. Additionally, a concise outlook on the rational construction of functional PAFs is discussed in terms of developing next-generation porous materials for broader applications.
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43
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Lucero J, Crawford JM, Osuna C, Carreon MA. Solvothermal synthesis of porous organic cage CC3 in the presence of dimethylformamide as solvent. CrystEngComm 2019. [DOI: 10.1039/c9ce00662a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Morphology, and crystal product of porous organic cage CC3, was modified by the use of a novel and non-traditional high dielectric constant solvent dimethyl formamide.
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Affiliation(s)
- Jolie Lucero
- Department of Chemical and Biological Engineering
- Colorado School of Mines
- Golden
- USA
| | - James M. Crawford
- Department of Chemical and Biological Engineering
- Colorado School of Mines
- Golden
- USA
| | - Carla Osuna
- Department of Chemical and Biological Engineering
- Colorado School of Mines
- Golden
- USA
| | - Moises A. Carreon
- Department of Chemical and Biological Engineering
- Colorado School of Mines
- Golden
- USA
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44
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Zhao Y, Bu N, Shao H, Zhang Q, Feng B, Xu Y, Zheng G, Yuan Y, Yan Z, Xia L. A carbonized porous aromatic framework to achieve customized nitrogen atoms for enhanced supercapacitor performance. NEW J CHEM 2019. [DOI: 10.1039/c9nj04038b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A porous aromatic framework serving as a precursor preserves the customized nitrogen atoms in the porous carbons, which endows improved electrochemical properties for high-performance supercapacitor applications.
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Affiliation(s)
- Yunbo Zhao
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Naishun Bu
- School of Environmental Science
- Liaoning University
- Shenyang 110036
- China
| | - Huimin Shao
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Qian Zhang
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Bin Feng
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Yanmei Xu
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Guiyue Zheng
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Ye Yuan
- Key Laboratory of Polyoxometalate Science of Ministry of Education
- Northeast Normal University
- Changchun 130024
- China
| | - Zhuojun Yan
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
| | - Lixin Xia
- College of Chemistry
- Liaoning University
- Shenyang 110036
- China
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45
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Xia L, Yang D, Zhang H, Zhang Q, Bu N, Song P, Yan Z, Yuan Y. Constructing “breathing” dynamic skeletons with extra π-conjugated adsorption sites for iodine capture. RSC Adv 2019; 9:20852-20856. [PMID: 35515545 PMCID: PMC9066021 DOI: 10.1039/c9ra01904a] [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: 03/13/2019] [Accepted: 06/24/2019] [Indexed: 02/03/2023] Open
Abstract
Radioiodine (129I and 131I) emission from the nuclear waste stream has aroused enormous apprehension because of its quick diffusion and radiological contamination. Conventional porous adsorbents such as zeolites and carbon with rigid skeletons and constant pore volumes reveal a limited performance for reliable storage. Here, a series of soft porous aromatic frameworks (PAFs) with additional π-conjugated fragments is disclosed to serve as physicochemical stable media. Due to the flexibility of the tertiary amine center, the PAF products provide sufficient space for the binding sites, and thus exhibit a considerable capability for iodine capture from both gaseous and soluble environments. The obtained capacity of PAFs is ca. 1.6 times higher than that of PAF-1 which possesses similar aromatic constituents featuring an ultra-large specific surface area (BET = 5600 m2 g−1). The novel paradigm of dynamic frameworks is of fundamental importance for designing adsorbents to treat environmental pollution issues. A series of soft porous aromatic frameworks (PAFs) with additional π-conjugated fragments provides sufficient space for the binding sites which serve as physicochemical stable mediums for radioiodine.![]()
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Affiliation(s)
- Lixin Xia
- College of Chemistry
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Dongqi Yang
- College of Chemistry
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Hongcui Zhang
- College of Chemistry
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Qian Zhang
- College of Chemistry
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Naishun Bu
- School of Environmental Science
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Peng Song
- Department of Physics
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Zhuojun Yan
- College of Chemistry
- Liaoning University
- Shenyang 110036
- P. R. China
| | - Ye Yuan
- Key Laboratory of Polyoxometalate Science of the Ministry of Education
- Faculty of Chemistry
- Northeast Normal University
- Changchun 130024
- P. R. China
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46
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Berardo E, Turcani L, Miklitz M, Jelfs KE. An evolutionary algorithm for the discovery of porous organic cages. Chem Sci 2018; 9:8513-8527. [PMID: 30568775 PMCID: PMC6251339 DOI: 10.1039/c8sc03560a] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Accepted: 09/11/2018] [Indexed: 12/19/2022] Open
Abstract
The chemical and structural space of possible molecular materials is enormous, as they can, in principle, be built from any combination of organic building blocks. Here we have developed an evolutionary algorithm (EA) that can assist in the efficient exploration of chemical space for molecular materials, helping to guide synthesis to materials with promising applications. We demonstrate the utility of our EA to porous organic cages, predicting both promising targets and identifying the chemical features that emerge as important for a cage to be shape persistent or to adopt a particular cavity size. We identify that shape persistent cages require a low percentage of rotatable bonds in their precursors (<20%) and that the higher topicity building block in particular should use double bonds for rigidity. We can use the EA to explore what size ranges for precursors are required for achieving a given pore size in a cage and show that 16 Å pores, which are absent in the literature, should be synthetically achievable. Our EA implementation is adaptable and easily extendable, not only to target specific properties of porous organic cages, such as optimal encapsulants or molecular separation materials, but also to any easily calculable property of other molecular materials.
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Affiliation(s)
- Enrico Berardo
- Department of Chemistry , Imperial College London , South Kensington , London , SW7 2AZ , UK . ; Tel: +44 (0)207 594 3438
| | - Lukas Turcani
- Department of Chemistry , Imperial College London , South Kensington , London , SW7 2AZ , UK . ; Tel: +44 (0)207 594 3438
| | - Marcin Miklitz
- Department of Chemistry , Imperial College London , South Kensington , London , SW7 2AZ , UK . ; Tel: +44 (0)207 594 3438
| | - Kim E Jelfs
- Department of Chemistry , Imperial College London , South Kensington , London , SW7 2AZ , UK . ; Tel: +44 (0)207 594 3438
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47
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McMahon DP, Stephenson A, Chong SY, Little MA, Jones JTA, Cooper AI, Day GM. Computational modelling of solvent effects in a prolific solvatomorphic porous organic cage. Faraday Discuss 2018; 211:383-399. [PMID: 30083695 PMCID: PMC6208051 DOI: 10.1039/c8fd00031j] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2018] [Accepted: 03/22/2018] [Indexed: 11/21/2022]
Abstract
Crystal structure prediction methods can enable the in silico design of functional molecular crystals, but solvent effects can have a major influence on relative lattice energies, sometimes thwarting predictions. This is particularly true for porous solids, where solvent included in the pores can have an important energetic contribution. We present a Monte Carlo solvent insertion procedure for predicting the solvent filling of porous structures from crystal structure prediction landscapes, tested using a highly solvatomorphic porous organic cage molecule, CC1. Using this method, we can understand why the predicted global energy minimum structure for CC1 is never observed from solvent crystallisation. We also explain the formation of three different solvatomorphs of CC1 from three structurally-similar chlorinated solvents. Calculated solvent stabilisation energies are found to correlate with experimental results from thermogravimetric analysis, suggesting a future computational framework for a priori materials design that factors in solvation effects.
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Affiliation(s)
- David P. McMahon
- Computational Systems Chemistry
, School of Chemistry
, University of Southampton
,
SO17 1BJ
, UK
.
| | - Andrew Stephenson
- Department of Chemistry and Materials Innovation Factory
, University of Liverpool
,
Crown St.
, Liverpool L69 7ZD
, UK
.
| | - Samantha Y. Chong
- Department of Chemistry and Materials Innovation Factory
, University of Liverpool
,
Crown St.
, Liverpool L69 7ZD
, UK
.
| | - Marc A. Little
- Department of Chemistry and Materials Innovation Factory
, University of Liverpool
,
Crown St.
, Liverpool L69 7ZD
, UK
.
| | - James T. A. Jones
- Department of Chemistry and Materials Innovation Factory
, University of Liverpool
,
Crown St.
, Liverpool L69 7ZD
, UK
.
| | - Andrew I. Cooper
- Department of Chemistry and Materials Innovation Factory
, University of Liverpool
,
Crown St.
, Liverpool L69 7ZD
, UK
.
| | - Graeme M. Day
- Computational Systems Chemistry
, School of Chemistry
, University of Southampton
,
SO17 1BJ
, UK
.
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48
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Kim Y, Koo J, Hwang IC, Mukhopadhyay RD, Hong S, Yoo J, Dar AA, Kim I, Moon D, Shin TJ, Ko YH, Kim K. Rational Design and Construction of Hierarchical Superstructures Using Shape-Persistent Organic Cages: Porphyrin Box-Based Metallosupramolecular Assemblies. J Am Chem Soc 2018; 140:14547-14551. [DOI: 10.1021/jacs.8b08030] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Younghoon Kim
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Jaehyoung Koo
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - In-Chul Hwang
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Rahul Dev Mukhopadhyay
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Soonsang Hong
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Jejoong Yoo
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Ajaz Ahmad Dar
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Ikjin Kim
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Dohyun Moon
- Supramolecule Crystallography, Pohang Light Source II, Pohang 37673, Republic of Korea
| | - Tae Joo Shin
- UNIST Central Research Facilities & School of Natural Science, Ulsan National Institute of Science and Technology, Ulsan 44919, Republic of Korea
| | - Young Ho Ko
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
| | - Kimoon Kim
- Center for Self-assembly and Complexity, Institute for Basic Science, Pohang 37673, Republic of Korea
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49
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Turcani L, Berardo E, Jelfs KE. stk: A python toolkit for supramolecular assembly. J Comput Chem 2018; 39:1931-1942. [PMID: 30247770 PMCID: PMC6585955 DOI: 10.1002/jcc.25377] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2018] [Revised: 05/17/2018] [Accepted: 05/20/2018] [Indexed: 01/08/2023]
Abstract
A tool for the automated assembly, molecular optimization and property calculation of supramolecular materials is presented. stk is a modular, extensible and open‐source Python library that provides a simple Python API and integration with third party computational codes. stk currently supports the construction of linear polymers, small linear oligomers, organic cages in multiple topologies and covalent organic frameworks (COFs) in multiple framework topologies, but is designed to be easy to extend to new, unrelated, supramolecules or new topologies. Extension to metal–organic frameworks (MOFs), metallocycles or supramolecules, such as catenanes, would be straightforward. Through integration with third party codes, stk offers the user the opportunity to explore the potential energy landscape of the assembled supramolecule and then calculate the supramolecule's structural features and properties. stk provides support for high‐throughput screening of large batches of supramolecules at a time. The source code of the program can be found at https://github.com/supramolecular-toolkit/stk. © 2018 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc.
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Affiliation(s)
- Lukas Turcani
- Department of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London
| | - Enrico Berardo
- Department of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London
| | - Kim E Jelfs
- Department of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London
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50
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Day GM, Cooper AI. Energy-Structure-Function Maps: Cartography for Materials Discovery. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2018; 30:e1704944. [PMID: 29205536 DOI: 10.1002/adma.201704944] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Revised: 09/20/2017] [Indexed: 06/07/2023]
Abstract
Some of the most successful approaches to structural design in materials chemistry have exploited strong directional bonds, whose geometric reliability lends predictability to solid-state assembly. For example, metal-organic frameworks are an important design platform in materials chemistry. By contrast, the structure of molecular crystals is defined by a balance of weaker intermolecular forces, and small changes to the molecular building blocks can lead to large changes in crystal packing. Hence, empirical rules are inherently less reliable for engineering the structures of molecular solids. Energy-structure-function (ESF) maps are a new approach for the discovery of functional organic crystals. These maps fuse crystal-structure prediction with the computation of physical properties to allow researchers to choose the most promising molecule for a given application, prior to its synthesis. ESF maps were used recently to discover a highly porous molecular crystal that has a high methane deliverable capacity and the lowest density molecular crystal reported to date (r = 0.41 g cm-3 , SABET = 3425 m2 g-1 ). Progress in this field is reviewed, with emphasis on the future opportunities and challenges for a design strategy based on computed ESF maps.
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Affiliation(s)
- Graeme M Day
- Computational Systems Chemistry, School of Chemistry, University of Southampton, Southampton, SO17 1BJ, UK
| | - Andrew I Cooper
- Department of Chemistry and Materials Innovation Factory, Leverhulme Centre for Functional Materials Design, 51 Oxford Street, Liverpool, L7 3NY, UK
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