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Krysiak Y, Plana-Ruiz S, Fink L, Alig E, Bahnmüller U, Kolb U, Schmidt MU. High Temperature Electron Diffraction on Organic Crystals: In Situ Crystal Structure Determination of Pigment Orange 34. J Am Chem Soc 2024; 146:9880-9887. [PMID: 38536667 PMCID: PMC11009952 DOI: 10.1021/jacs.3c14800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Revised: 02/23/2024] [Accepted: 03/14/2024] [Indexed: 04/11/2024]
Abstract
Small molecule structures and their applications rely on good knowledge of their atomic arrangements. However, the crystal structures of these compounds and materials, which are often composed of fine crystalline domains, cannot be determined with single-crystal X-ray diffraction. Three-dimensional electron diffraction (3D ED) is already becoming a reliable method for the structure analysis of submicrometer-sized organic materials. The reduction of electron beam damage is essential for successful structure determination and often prevents the analysis of organic materials at room temperature, not to mention high temperature studies. In this work, we apply advanced 3D ED methods at different temperatures enabling the accurate structure determination of two phases of Pigment Orange 34 (C34H28N8O2Cl2), a biphenyl pyrazolone pigment that has been industrially produced for more than 80 years and used for plastics application. The crystal structure of the high-temperature phase, which can be formed during plastic coloration, was determined at 220 °C. For the first time, we were able to observe a reversible phase transition in an industrial organic pigment in the solid state, even with atomic resolution, despite crystallites being submicrometer in size. By localizing hydrogen atoms, we were even able to detect the tautomeric state of the molecules at different temperatures. This demonstrates that precise, fast, and low-dose 3D ED measurements enable high-temperature studies the door for general in situ studies of nanocrystalline materials at the atomic level.
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Affiliation(s)
- Yaşar Krysiak
- Institute
of Inorganic Chemistry, Leibniz University
Hannover, Callinstraße 9, 30167 Hannover, Germany
| | - Sergi Plana-Ruiz
- Department
of Materials and Geoscience, Technische
Universität Darmstadt, Petersenstrasse 23, 64287 Darmstadt, Germany
- LENS,
MIND/IN2UB, Departament d’Enginyeria Electrònica i Biomèdica, Universitat de Barcelona, Martí i Franquès 1, 08028 Barcelona, Catalonia, Spain
| | - Lothar Fink
- Institute
of Inorganic and Analytical Chemistry, Goethe
University Frankfurt am Main, Max-von-Laue-Str. 7, 60438 Frankfurt am Main, Germany
| | - Edith Alig
- Institute
of Inorganic and Analytical Chemistry, Goethe
University Frankfurt am Main, Max-von-Laue-Str. 7, 60438 Frankfurt am Main, Germany
| | - Ulrich Bahnmüller
- Institute
of Inorganic Chemistry, Leibniz University
Hannover, Callinstraße 9, 30167 Hannover, Germany
| | - Ute Kolb
- Department
of Materials and Geoscience, Technische
Universität Darmstadt, Petersenstrasse 23, 64287 Darmstadt, Germany
- Institute
of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg University, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Martin U. Schmidt
- Institute
of Inorganic and Analytical Chemistry, Goethe
University Frankfurt am Main, Max-von-Laue-Str. 7, 60438 Frankfurt am Main, Germany
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2
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Liang Z, Batuk M, Orlandi F, Manuel P, Hadermann J, Hayward MA. Disproportionation of Co 2+ in the Topochemically Reduced Oxide LaSrCoRuO 5. Angew Chem Int Ed Engl 2024; 63:e202313067. [PMID: 38085493 PMCID: PMC10952446 DOI: 10.1002/anie.202313067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2023] [Indexed: 01/05/2024]
Abstract
Complex transition-metal oxides exhibit a wide variety of chemical and physical properties which are a strong function the local electronic states of the transition-metal centres, as determined by a combination of metal oxidation state and local coordination environment. Topochemical reduction of the double perovskite oxide, LaSrCoRuO6 , using Zr, yields LaSrCoRuO5 . This reduced phase contains an ordered array of apex-linked square-based pyramidal Ru3+ O5 , square-planar Co1+ O4 and octahedral Co3+ O6 units, consistent with the coordination-geometry driven disproportionation of Co2+ . Coordination-geometry driven disproportionation of d7 transition-metal cations (e.g. Rh2+ , Pd3+ , Pt3+ ) is common in complex oxides containing 4d and 5d metals. However, the weak ligand field experienced by a 3d transition-metal such as cobalt leads to the expectation that d7+ Co2+ should be stable to disproportionation in oxide environments, so the presence of Co1+ O4 and Co3+ O6 units in LaSrCoRuO5 is surprising. Low-temperature measurements indicate LaSrCoRuO5 adopts a ferromagnetically ordered state below 120 K due to couplings between S=1 /2 Ru3+ and S=1 Co1+ .
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Affiliation(s)
- Zhilin Liang
- Department of Chemistry, Inorganic Chemistry LaboratoryUniversity of OxfordSouth Parks RoadOxfordOX1 3QRUK
| | - Maria Batuk
- EMATUniversity of AntwerpGroenenborgerlaan 1712020AntwerpBelgium
| | - Fabio Orlandi
- ISIS Neutron and Muon SourceRutherford Appleton Laboratory ChiltonOxonOX11 0QXUK
| | - Pascal Manuel
- ISIS Neutron and Muon SourceRutherford Appleton Laboratory ChiltonOxonOX11 0QXUK
| | - Joke Hadermann
- EMATUniversity of AntwerpGroenenborgerlaan 1712020AntwerpBelgium
| | - Michael A. Hayward
- Department of Chemistry, Inorganic Chemistry LaboratoryUniversity of OxfordSouth Parks RoadOxfordOX1 3QRUK
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3
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Liu Y, Liu X, Su A, Gong C, Chen S, Xia L, Zhang C, Tao X, Li Y, Li Y, Sun T, Bu M, Shao W, Zhao J, Li X, Peng Y, Guo P, Han Y, Zhu Y. Revolutionizing the structural design and determination of covalent-organic frameworks: principles, methods, and techniques. Chem Soc Rev 2024; 53:502-544. [PMID: 38099340 DOI: 10.1039/d3cs00287j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2024]
Abstract
Covalent organic frameworks (COFs) represent an important class of crystalline porous materials with designable structures and functions. The interconnected organic monomers, featuring pre-designed symmetries and connectivities, dictate the structures of COFs, endowing them with high thermal and chemical stability, large surface area, and tunable micropores. Furthermore, by utilizing pre-functionalization or post-synthetic functionalization strategies, COFs can acquire multifunctionalities, leading to their versatile applications in gas separation/storage, catalysis, and optoelectronic devices. Our review provides a comprehensive account of the latest advancements in the principles, methods, and techniques for structural design and determination of COFs. These cutting-edge approaches enable the rational design and precise elucidation of COF structures, addressing fundamental physicochemical challenges associated with host-guest interactions, topological transformations, network interpenetration, and defect-mediated catalysis.
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Affiliation(s)
- Yikuan Liu
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Xiaona Liu
- National Engineering Research Center of Lower-Carbon Catalysis Technology, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China.
| | - An Su
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Chengtao Gong
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Shenwei Chen
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Liwei Xia
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Chengwei Zhang
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Xiaohuan Tao
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Yue Li
- Institute of Intelligent Computing, Zhejiang Lab, Hangzhou 311121, China
| | - Yonghe Li
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Tulai Sun
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Mengru Bu
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Wei Shao
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Jia Zhao
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Xiaonian Li
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Yongwu Peng
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
| | - Peng Guo
- National Engineering Research Center of Lower-Carbon Catalysis Technology, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China.
- University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Yu Han
- School of Emergent Soft Matter, South China University of Technology, Guangzhou, China.
- King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi Arabia.
| | - Yihan Zhu
- Center for Electron Microscopy, Institute for Frontier and Interdisciplinary Sciences, State Key Laboratory Breeding Base of Green Chemistry Synthesis Technology, College of Materials Science and Engineering and College of Chemical Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China.
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4
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Hogan-Lamarre P, Luo Y, Bücker R, Miller RJD, Zou X. STEM SerialED: achieving high-resolution data for ab initio structure determination of beam-sensitive nanocrystalline materials. IUCRJ 2024; 11:62-72. [PMID: 38038991 PMCID: PMC10833385 DOI: 10.1107/s2052252523009661] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Accepted: 11/06/2023] [Indexed: 12/02/2023]
Abstract
Serial electron diffraction (SerialED), which applies a snapshot data acquisition strategy for each crystal, was introduced to tackle the problem of radiation damage in the structure determination of beam-sensitive materials by three-dimensional electron diffraction (3DED). The snapshot data acquisition in SerialED can be realized using both transmission and scanning transmission electron microscopes (TEM/STEM). However, the current SerialED workflow based on STEM setups requires special external devices and software, which limits broader adoption. Here, we present a simplified experimental implementation of STEM-based SerialED on Thermo Fisher Scientific STEMs using common proprietary software interfaced through Python scripts to automate data collection. Specifically, we utilize TEM Imaging and Analysis (TIA) scripting and TEM scripting to access the STEM functionalities of the microscope, and DigitalMicrograph scripting to control the camera for snapshot data acquisition. Data analysis adapts the existing workflow using the software CrystFEL, which was developed for serial X-ray crystallography. Our workflow for STEM SerialED can be used on any Gatan or Thermo Fisher Scientific camera. We apply this workflow to collect high-resolution STEM SerialED data from two aluminosilicate zeolites, zeolite Y and ZSM-25. We demonstrate, for the first time, ab initio structure determination through direct methods using STEM SerialED data. Zeolite Y is relatively stable under the electron beam, and STEM SerialED data extend to 0.60 Å. We show that the structural model obtained using STEM SerialED data merged from 358 crystals is nearly identical to that using continuous rotation electron diffraction data from one crystal. This demonstrates that accurate structures can be obtained from STEM SerialED. Zeolite ZSM-25 is very beam-sensitive and has a complex structure. We show that STEM SerialED greatly improves the data resolution of ZSM-25, compared with serial rotation electron diffraction (SerialRED), from 1.50 to 0.90 Å. This allows, for the first time, the use of standard phasing methods, such as direct methods, for the ab initio structure determination of ZSM-25.
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Affiliation(s)
- Pascal Hogan-Lamarre
- Department of Physics, University of Toronto, 80 George Street, Toronto, Ontario M5S 3H6, Canada
- Max Planck Institute for the Structure and Dynamics of Matter, Hamburg, Germany
| | - Yi Luo
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106, Sweden
| | - Robert Bücker
- Max Planck Institute for the Structure and Dynamics of Matter, Hamburg, Germany
| | - R. J. Dwayne Miller
- Department of Physics, University of Toronto, 80 George Street, Toronto, Ontario M5S 3H6, Canada
- Department of Chemistry, University of Toronto, 80 George Street, Toronto, Ontario M5S 3H6, Canada
| | - Xiaodong Zou
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106, Sweden
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5
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Perween S, Wissel K, Dallos Z, Weiss M, Ikeda Y, Vasala S, Strobel S, Schützendübe P, Jeschenko PM, Kolb U, Marschall R, Grabowski B, Glatzel P. Topochemical Fluorination of LaBaInO 4 to LaBaInO 3F 2, Their Optical Characterization, and Photocatalytic Activities for Hydrogen Evolution. Inorg Chem 2023; 62:16329-16342. [PMID: 37756217 DOI: 10.1021/acs.inorgchem.3c01682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/29/2023]
Abstract
We report on a nonoxidative topochemical route for the synthesis of a novel indate-based oxyfluoride, LaBaInO3F2, using a low-temperature reaction of Ruddlesden-Popper-type LaBaInO4 with polyvinylidene difluoride as a fluorinating agent. The reaction involves the replacement of oxide ions with fluoride ions as well as the insertion of fluoride ions into the interstitial sites. From the characterization via powder X-ray diffraction (PXRD) and Rietveld analysis as well as automated electron diffraction tomography (ADT), it is deduced that the fluorination results in a symmetry lowering from I4/mmm (139) to monoclinic C2/c (15) with an expansion perpendicular to the perovskite layers and a strong tilting of the octahedra in the ab plane. Disorder of the anions on the apical and interstitial sites seems to be favored. The most stable configuration for the anion ordering is estimated based on an evaluation of bond distances from the ADT measurements via bond valence sums (BVSs). The observed disordering of the anions in the oxyfluoride results in changes in the optical properties and thus shows that the topochemical anion modification can present a viable route to alter the optical properties. Partial densities of states (PDOSs) obtained from ab initio density functional theory (DFT) calculations reveal a bandgap modification upon fluoride-ion introduction which originates from the presence of the oxide anions on the interstitial sites. The photocatalytic performance of the oxide and oxyfluoride shows that both materials are photocatalytically active for hydrogen (H2) evolution.
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Affiliation(s)
- Shama Perween
- Institute for Materials Science, Materials Synthesis Group, University of Stuttgart, Heisenbergstrasse 3, Stuttgart 70569, Germany
- Institute for Materials Science, Technical University of Darmstadt, Alarich-Weiss-Straße 2, Darmstadt 64287, Germany
| | - Kerstin Wissel
- Institute for Materials Science, Materials Synthesis Group, University of Stuttgart, Heisenbergstrasse 3, Stuttgart 70569, Germany
| | - Zsolt Dallos
- Institute for Applied Geosciences, Technical University of Darmstadt, Schnittspahnstrasse 9, Darmstadt 64287, Germany
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg-University of Mainz, Duesbergweg 10-14, Mainz 55128, Germany
| | - Morten Weiss
- Department of Chemistry, University of Bayreuth, Universitätsstrasse 30, Bayreuth 95447, Germany
| | - Yuji Ikeda
- Institute for Materials Science, Department of Materials Design, University of Stuttgart, Pfaffenwaldring 55, Stuttgart 70569, Germany
| | - Sami Vasala
- ESRF - The European Synchrotron, 71 Avenue des Martyrs, Grenoble 38000, France
| | - Sabine Strobel
- Institute of Inorganic Chemistry, University of Stuttgart, Pfaffenwaldring 55, Stuttgart 70569, Germany
| | - Peter Schützendübe
- Max Planck Institute for Intelligent Systems, Stuttgart D-70569, Germany
| | | | - Ute Kolb
- Institute for Applied Geosciences, Technical University of Darmstadt, Schnittspahnstrasse 9, Darmstadt 64287, Germany
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg-University of Mainz, Duesbergweg 10-14, Mainz 55128, Germany
| | - Roland Marschall
- Department of Chemistry, University of Bayreuth, Universitätsstrasse 30, Bayreuth 95447, Germany
| | - Blazej Grabowski
- Institute for Materials Science, Department of Materials Design, University of Stuttgart, Pfaffenwaldring 55, Stuttgart 70569, Germany
| | - Pieter Glatzel
- ESRF - The European Synchrotron, 71 Avenue des Martyrs, Grenoble 38000, France
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6
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Zhou G, Yang T, Huang Z. Structure determination of a low-crystallinity covalent organic framework by three-dimensional electron diffraction. Commun Chem 2023; 6:116. [PMID: 37286771 DOI: 10.1038/s42004-023-00915-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Accepted: 05/30/2023] [Indexed: 06/09/2023] Open
Abstract
Covalent organic frameworks (COFs) have been attracting intense research due to their permanent porosity, designable architecture, and high stability. However, COFs are challenging to crystallize and their synthesis often results in tiny crystal sizes and low crystallinities, which hinders an unambiguous structure determination. Herein, we demonstrate that the structure of low-crystallinity COF Py-1P nanocrystals can be solved by coupling three-dimensional electron diffraction (3DED) with simulated annealing (SA). The resulting model is comparable to that obtained from high-crystallinity samples by dual-space method. Moreover, for low-resolution 3DED data, the model obtained by SA shows a better framework than those provided by classic direct method, dual-space method, and charge flipping. We further simulate data with different resolutions to understand the reliability of SA under different crystal quality conditions. The successful determination of Py-1P structure by SA compared to other methods provides new knowledge for using 3DED to analyze low-crystallinity and nanosized materials.
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Affiliation(s)
- Guojun Zhou
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, SE-106 91, Sweden
| | - Taimin Yang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, SE-106 91, Sweden
| | - Zhehao Huang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, SE-106 91, Sweden.
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7
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Klar PB, Krysiak Y, Xu H, Steciuk G, Cho J, Zou X, Palatinus L. Accurate structure models and absolute configuration determination using dynamical effects in continuous-rotation 3D electron diffraction data. Nat Chem 2023:10.1038/s41557-023-01186-1. [PMID: 37081207 DOI: 10.1038/s41557-023-01186-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Accepted: 03/16/2023] [Indexed: 04/22/2023]
Abstract
Continuous-rotation 3D electron diffraction methods are increasingly popular for the structure analysis of very small organic molecular crystals and crystalline inorganic materials. Dynamical diffraction effects cause non-linear deviations from kinematical intensities that present issues in structure analysis. Here, a method for structure analysis of continuous-rotation 3D electron diffraction data is presented that takes multiple scattering effects into account. Dynamical and kinematical refinements of 12 compounds-ranging from small organic compounds to metal-organic frameworks to inorganic materials-are compared, for which the new approach yields significantly improved models in terms of accuracy and reliability with up to fourfold reduction of the noise level in difference Fourier maps. The intrinsic sensitivity of dynamical diffraction to the absolute structure is also used to assign the handedness of 58 crystals of 9 different chiral compounds, showing that 3D electron diffraction is a reliable tool for the routine determination of absolute structures.
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Affiliation(s)
- Paul B Klar
- Institute of Physics, Czech Academy of Sciences, Prague, Czech Republic
- Department of Geosciences, University of Bremen, Bremen, Germany
| | - Yaşar Krysiak
- Institute of Physics, Czech Academy of Sciences, Prague, Czech Republic
- Institute of Inorganic Chemistry, Leibniz University Hannover, Hannover, Germany
| | - Hongyi Xu
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, Sweden
| | - Gwladys Steciuk
- Institute of Physics, Czech Academy of Sciences, Prague, Czech Republic
| | - Jung Cho
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, Sweden
| | - Xiaodong Zou
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm, Sweden
| | - Lukas Palatinus
- Institute of Physics, Czech Academy of Sciences, Prague, Czech Republic.
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8
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Marler B, Gies H, De Baerdemaeker T, Müller U, Parvulescu AN, Zhang W, Yokoi T, Xiao FS, Meng X, De Vos D, Kolb U. Synthesis and Structure of COE-11, a New Borosilicate Zeolite with a Two-Dimensional Pore System of 12-Ring Channels. CHEMISTRY 2023. [DOI: 10.3390/chemistry5020052] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/31/2023] Open
Abstract
The new zeolite, COE-11, was synthesized at 155 °C to 168 °C by hydrothermal synthesis from a reaction mixture of SiO2/tetraethylammonium hydroxide/H3BO3/NaOH/H2O. Because tetraethylammonium is an unspecific structure directing agent, COE-11 crystallizes in all cases together with at least one impurity phase from a selection of phases: zeolite types *BEA, CHA, FER, MFI, MOR, MTW; the layered silicates magadiite and kenyaite; and searlsite and silica polymorph quartz. The crystal structure was solved from 3D electron diffraction (3D ED) data. Subsequent structure refinements of X-ray powder diffraction (PXRD) data and single crystal electron diffraction data converged to residual values of RF = 0.039, chi2 = 3.6 (PXRD) and RF = 21.81% (3D ED) confirming the structure model. COE-11 crystallizes in space group C2 with unit cell dimensions of a0 = 17.3494(11) Å, b0 = 17.3409(11) Å, c0 = 14.2789(4) Å and β = 113.762(2) °. The structure of COE-11 is characterized by a microporous borosilicate framework with intersecting, highly elliptical 12-ring channels running parallel (110) and (1–10) and forming a two-dimensional pore system. The Rietveld refinement provided a hint that boron partly substitutes silicon on three specific T sites of the framework. The idealized chemical composition of as-made COE-11 is [(CH3CH2)4N]4[B4Si62O132] per unit cell. Physico-chemical characterization using solid-state NMR spectroscopy, SEM, TG-DTA, and ATR-FTIR spectroscopy confirmed that COE-11 is a microporous borosilicate zeolite. COE-11 is structurally closely related to zeolite beta polymorph B but differs concerning the dimensionality of the pore system, which is 2D instead of 3D.
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9
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Steinke F, Hernandéz LG, Shearan SJI, Pohlmann M, Taddei M, Kolb U, Stock N. Synthesis and Structure Evolution in Metal Carbazole Diphosphonates Followed by Electron Diffraction. Inorg Chem 2023; 62:35-42. [PMID: 36346925 PMCID: PMC10170509 DOI: 10.1021/acs.inorgchem.2c02599] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
To access porous metal phosphonates, a new V-shaped, rigid, and sterically demanding diphosphonic acid, namely 3,6-diphosphono-9H-carbazole (H4L), was designed and employed in a high-throughput investigation. Screening of different metal salts and subsequent optimization studies resulted in the isolation of two porous metal phosphonates [Cu2(H2O)2(L)]·2H2O (CAU-37) and [Zn6.75(H2O)1.5(HL)2.5(L)1.5]·8H2O (CAU-57). Structure determination was accomplished by electron diffraction and the dehydration behavior of CAU-37 was followed in situ. A rare case of intralayer water de-/adsorption in CAU-37 was found which leads to a cell volume change of 11.9%. Rod-shaped inorganic building units (IBUs) are connected to layers and structural flexibility is due to "accordion-like" structural changes within the layers. In contrast, in CAU-57 a layered IBU is found, which usually results in the formation of dense structures. Due to the shape and rigidity of the linker, the interconnection of the IBUs results in the formation of pores. Water sorption measurements in combination with powder X-ray diffraction data confirmed the reversibility under structural retention.
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Affiliation(s)
- Felix Steinke
- Institut für Anorganische Chemie, Christian-Albrechts-Universität zu Kiel, 24098 Kiel, Germany
| | - Laura Gemmrich Hernandéz
- Centre for High Resolution Electron Microscopy (EMC-M), Johannes Gutenberg University Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Stephen J I Shearan
- Energy Safety Research Institute, Swansea University, Fabian Way, Swansea SA1 8EN, U.K
| | - Maxi Pohlmann
- Institut für Anorganische Chemie, Christian-Albrechts-Universität zu Kiel, 24098 Kiel, Germany
| | - Marco Taddei
- Energy Safety Research Institute, Swansea University, Fabian Way, Swansea SA1 8EN, U.K.,Department of Chemistry and Industrial Chemistry, University of Pisa, Via Giuseppe Moruzzi 13, 56124 Pisa, Italy
| | - Ute Kolb
- Centre for High Resolution Electron Microscopy (EMC-M), Johannes Gutenberg University Mainz, Duesbergweg 10-14, 55128 Mainz, Germany
| | - Norbert Stock
- Institut für Anorganische Chemie, Christian-Albrechts-Universität zu Kiel, 24098 Kiel, Germany.,Kiel Nano, Surface and Interface Science KiNSIS, Kiel University, Christian-Albrechts-Platz 4, 24118 Kiel, Germany
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10
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Cleverley A, Beanland R. Modelling fine-sliced three dimensional electron diffraction data with dynamical Bloch-wave simulations. IUCRJ 2023; 10:118-130. [PMID: 36598507 PMCID: PMC9812222 DOI: 10.1107/s2052252522011290] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Accepted: 11/23/2022] [Indexed: 06/17/2023]
Abstract
Recent interest in structure solution and refinement using electron diffraction (ED) has been fuelled by its inherent advantages when applied to crystals of sub-micrometre size, as well as its better sensitivity to light elements. Currently, data are often processed with software written for X-ray diffraction, using the kinematic theory of diffraction to generate model intensities - despite the inherent differences in diffraction processes in ED. Here, dynamical Bloch-wave simulations are used to model continuous-rotation electron diffraction data, collected with a fine angular resolution (crystal orientations of ∼0.1°). This fine-sliced data allows a re-examination of the corrections applied to ED data. A new method is proposed for optimizing crystal orientation, and the angular range of the incident beam and the varying slew rate are taken into account. Observed integrated intensities are extracted and accurate comparisons are performed with simulations using rocking curves for a (110) lamella of silicon 185 nm thick. R1 is reduced from 26% with the kinematic model to 6.8% using dynamical simulations.
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Affiliation(s)
- Anton Cleverley
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - Richard Beanland
- Department of Physics, University of Warwick, Coventry CV4 7AL, United Kingdom
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11
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Yang T, Xu H, Zou X. Improving data quality for three-dimensional electron diffraction by a post-column energy filter and a new crystal tracking method. J Appl Crystallogr 2022; 55:1583-1591. [PMID: 36570655 PMCID: PMC9721325 DOI: 10.1107/s1600576722009633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 09/30/2022] [Indexed: 11/30/2022] Open
Abstract
Three-dimensional electron diffraction (3D ED) has become an effective technique to determine the structures of submicrometre- (nanometre-)sized crystals. In this work, energy-filtered 3D ED was implemented using a post-column energy filter in both STEM mode and TEM mode [(S)TEM denoting (scanning) transmission electron microscope]. The setups for performing energy-filtered 3D ED on a Gatan imaging filter are described. The technique and protocol improve the accessibility of energy-filtered 3D ED post-column energy filters, which are available in many TEM laboratories. In addition, a crystal tracking method in STEM mode using high-angle annular dark-field imaging is proposed. This method enables the user to monitor the crystal position while collecting 3D ED data at the same time, allowing a larger tilt range without foregoing any diffraction frames or imposing extra electron dose. In order to compare the differences between energy-filtered and unfiltered 3D ED data sets, three well known crystallized inorganic samples have been studied in detail. For these samples, the final R 1 values improved by 10-30% for the energy-filtered data sets compared with the unfiltered data sets, and the structures became more chemically reasonable. Possible reasons for improvement are also discussed.
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Affiliation(s)
- Taimin Yang
- Department of Materials and Environmental Chemistry (MMK), Stockholm University, Svante Arrhenius väg 16 C, Stockholm, SE-10691, Sweden,Correspondence e-mail: ,
| | - Hongyi Xu
- Department of Materials and Environmental Chemistry (MMK), Stockholm University, Svante Arrhenius väg 16 C, Stockholm, SE-10691, Sweden,Correspondence e-mail: ,
| | - Xiaodong Zou
- Department of Materials and Environmental Chemistry (MMK), Stockholm University, Svante Arrhenius väg 16 C, Stockholm, SE-10691, Sweden
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12
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Brázda P, Klementová M, Krysiak Y, Palatinus L. Accurate lattice parameters from 3D electron diffraction data. I. Optical distortions. IUCRJ 2022; 9:735-755. [PMID: 36381142 PMCID: PMC9634609 DOI: 10.1107/s2052252522007904] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Accepted: 08/05/2022] [Indexed: 05/24/2023]
Abstract
Determination of lattice parameters from 3D electron diffraction (3D ED) data measured in a transmission electron microscope is hampered by a number of effects that seriously limit the achievable accuracy. The distortion of the diffraction patterns by the optical elements of the microscope is often the most severe problem. A thorough analysis of a number of experimental datasets shows that, in addition to the well known distortions, namely barrel-pincushion, spiral and elliptical, an additional distortion, dubbed parabolic, may be observed in the data. In precession electron diffraction data, the parabolic distortion leads to excitation-error-dependent shift and splitting of reflections. All distortions except for the elliptical distortion can be determined together with lattice parameters from a single 3D ED data set. However, the parameters of the elliptical distortion cannot be determined uniquely due to correlations with the lattice parameters. They can be determined and corrected either by making use of the known Laue class of the crystal or by combining data from two or more crystals. The 3D ED data can yield lattice parameter ratios with an accuracy of about 0.1% and angles with an accuracy better than 0.03°.
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Affiliation(s)
- Petr Brázda
- Department of Structure Analysis, Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, Prague 8, 18221, Czech Republic
| | - Mariana Klementová
- Department of Structure Analysis, Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, Prague 8, 18221, Czech Republic
| | - Yaşar Krysiak
- Department of Structure Analysis, Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, Prague 8, 18221, Czech Republic
- Institute of Inorganic Chemistry, Leibniz University of Hannover, Callinstraße 9, Hannover, 30167, Germany
| | - Lukáš Palatinus
- Department of Structure Analysis, Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, Prague 8, 18221, Czech Republic
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13
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Andrusenko I, Gemmi M. 3D
electron diffraction for structure determination of small‐molecule nanocrystals: A possible breakthrough for the pharmaceutical industry. WIRES NANOMEDICINE AND NANOBIOTECHNOLOGY 2022; 14:e1810. [PMID: 35595285 PMCID: PMC9539612 DOI: 10.1002/wnan.1810] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/01/2022] [Revised: 04/29/2022] [Accepted: 05/02/2022] [Indexed: 11/10/2022]
Affiliation(s)
- Iryna Andrusenko
- Center for Materials Interfaces, Electron Crystallography Istituto Italiano di Tecnologia Pontedera
| | - Mauro Gemmi
- Center for Materials Interfaces, Electron Crystallography Istituto Italiano di Tecnologia Pontedera
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14
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Ge M, Yang T, Xu H, Zou X, Huang Z. Direct Location of Organic Molecules in Framework Materials by Three-Dimensional Electron Diffraction. J Am Chem Soc 2022; 144:15165-15174. [PMID: 35950776 PMCID: PMC9434828 DOI: 10.1021/jacs.2c05122] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In the study of framework materials, probing interactions between frameworks and organic molecules is one of the most important tasks, which offers us a fundamental understanding of host-guest interactions in gas sorption, separation, catalysis, and framework structure formation. Single-crystal X-ray diffraction (SCXRD) is a conventional method to locate organic species and study such interactions. However, SCXRD demands large crystals whose quality is often vulnerable to, e.g., cracking on the crystals by introducing organic molecules, and this is a major challenge to use SCXRD for structural analysis. With the development of three-dimensional electron diffraction (3D ED), single-crystal structural analysis can be performed on very tiny crystals with sizes on the nanometer scale. Here, we analyze two framework materials, SU-8 and SU-68, with organic molecules inside their inorganic crystal structures. By applying 3D ED, with fast data collection and an ultralow electron dose (0.8-2.6 e- Å-2), we demonstrate for the first time that each nonhydrogen atom from the organic molecules can be ab initio located from structure solution, and they are shown as distinct and well-separated peaks in the difference electrostatic potential maps showing high accuracy and reliability. As a result, two different spatial configurations are identified for the same guest molecule in SU-8. We find that the organic molecules interact with the framework through strong hydrogen bonding, which is the key to immobilizing them at well-defined positions. In addition, we demonstrate that host-guest systems can be studied at room temperature. Providing high accuracy and reliability, we believe that 3D ED can be used as a powerful tool to study host-guest interactions, especially for nanocrystals.
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Affiliation(s)
- Meng Ge
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden
| | - Taimin Yang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden
| | - Hongyi Xu
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden
| | - Xiaodong Zou
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden
| | - Zhehao Huang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden
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15
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Single-crystal structure determination of nanosized metal-organic frameworks by three-dimensional electron diffraction. Nat Protoc 2022; 17:2389-2413. [PMID: 35896741 DOI: 10.1038/s41596-022-00720-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Accepted: 04/26/2022] [Indexed: 11/08/2022]
Abstract
Metal-organic frameworks (MOFs) have attracted considerable interest due to their well-defined pore architecture and structural tunability on molecular dimensions. While single-crystal X-ray diffraction (SCXRD) has been widely used to elucidate the structures of MOFs at the atomic scale, the formation of large and well-ordered crystals is still a crucial bottleneck for structure determination. To alleviate this challenge, three-dimensional electron diffraction (3D ED) has been developed for structure determination of nano- (submicron-)sized crystals. Such 3D ED data are collected from each single crystal using transmission electron microscopy. In this protocol, we introduce the entire workflow for structural analysis of MOFs by 3D ED, from sample preparation, data acquisition and data processing to structure determination. We describe methods for crystal screening and handling of crystal agglomerates, which are crucial steps in sample preparation for single-crystal 3D ED data collection. We further present how to set up a transmission electron microscope for 3D ED data acquisition and, more importantly, offer suggestions for the optimization of data acquisition conditions. For data processing, including unit cell and space group determination, and intensity integration, we provide guidelines on how to use electron and X-ray crystallography software to process 3D ED data. Finally, we present structure determination from 3D ED data and discuss the important features associated with 3D ED data that need to be considered. We believe that this protocol provides critical details for implementing and utilizing 3D ED as a structure determination platform for nano- (submicron-)sized MOFs as well as other crystalline materials.
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16
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Savina AA, Saiutina VV, Morozov AV, Boev AO, Aksyonov DA, Dejoie C, Batuk M, Bals S, Hadermann J, Abakumov AM. Chemistry, Local Molybdenum Clustering, and Electrochemistry in the Li 2+xMo 1-xO 3 Solid Solutions. Inorg Chem 2022; 61:5637-5652. [PMID: 35360905 DOI: 10.1021/acs.inorgchem.2c00420] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A broad range of cationic nonstoichiometry has been demonstrated for the Li-rich layered rock-salt-type oxide Li2MoO3, which has generally been considered as a phase with a well-defined chemical composition. Li2+xMo1-xO3 (-0.037 ≤ x ≤ 0.124) solid solutions were synthesized via hydrogen reduction of Li2MoO4 in the temperature range of 650-1100 °C, with x decreasing with the increase of the reduction temperature. The solid solutions adopt a monoclinically distorted O3-type layered average structure and demonstrate a robust local ordering of the Li cations and Mo3 triangular clusters within the mixed Li/Mo cationic layers. The local structure was scrutinized in detail by electron diffraction and aberration-corrected scanning transmission electron microcopy (STEM), resulting in an ordering model comprising a uniform distribution of the Mo3 clusters compatible with local electroneutrality and chemical composition. The geometry of the triangular clusters with their oxygen environment (Mo3O13 groups) has been directly visualized using differential phase contrast STEM imaging. The established local structure was used as input for density functional theory (DFT)-based calculations; they support the proposed atomic arrangement and provide a plausible explanation for the staircase galvanostatic charge profiles upon electrochemical Li+ extraction from Li2+xMo1-xO3 in Li cells. According to DFT, all electrochemical capacity in Li2+xMo1-xO3 solely originates from the cationic Mo redox process, which proceeds via oxidation of the Mo3 triangular clusters into bent Mo3 chains where the electronic capacity of the clusters depends on the initial chemical composition and Mo oxidation state defining the width of the first charge low-voltage plateau. Further oxidation at the high-voltage plateau proceeds through decomposition of the Mo3 chains into Mo2 dimers and further into individual Mo6+ cations.
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Affiliation(s)
- Aleksandra A Savina
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
| | - Viktoriia V Saiutina
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
| | - Anatolii V Morozov
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
| | - Anton O Boev
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
| | - Dmitry A Aksyonov
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
| | - Catherine Dejoie
- European Synchrotron Radiation Facility, 71 avenue des Martyrs, 38000 Grenoble, France
| | - Maria Batuk
- EMAT, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium
| | - Sara Bals
- EMAT, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium
| | - Joke Hadermann
- EMAT, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium
| | - Artem M Abakumov
- Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, bld. 1, 121205 Moscow, Russia
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17
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Petersen T, Zhao C, Bøjesen E, Broge N, Hata S, Liu Y, Etheridge J. Volume imaging by tracking sparse topological features in electron micrograph tilt series. Ultramicroscopy 2022; 236:113475. [DOI: 10.1016/j.ultramic.2022.113475] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Revised: 12/17/2021] [Accepted: 01/24/2022] [Indexed: 10/19/2022]
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18
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Samperisi L, Zou X, Huang Z. Three-Dimensional Electron Diffraction: A Powerful Structural Characterization Technique for Crystal Engineering. CrystEngComm 2022. [DOI: 10.1039/d2ce00051b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Understanding crystal structures and behaviors is crucial for constructing and engineering crystalline materials with various properties and functions. Recent advancement in three-dimensional electron diffraction (3D ED) and its application on...
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19
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Microcrystal electron diffraction in macromolecular and pharmaceutical structure determination. DRUG DISCOVERY TODAY. TECHNOLOGIES 2021; 37:93-105. [PMID: 34895659 DOI: 10.1016/j.ddtec.2020.12.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Revised: 12/08/2020] [Accepted: 12/11/2020] [Indexed: 02/05/2023]
Abstract
Microcrystal electron diffraction (MicroED) has recently shown to be a promising technique for structure determination in structural biology and pharmaceutical chemistry. Here, we discuss the unique properties of electrons and motivate its use for diffraction experiments. We review the latest developments in MicroED, and illustrate its applications in macromolecular crystallography, fragment screening and structure guided drug discovery. We discuss the perspectives of MicroED in synthetic chemistry and pharmaceutical development. We anticipate that the rapid advances MicroED showcased here will promote further development of electron crystallography and open up new opportunities for drug discovery.
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20
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Determination of Spinel Content in Cycled Li1.2Ni0.13Mn0.54Co0.13O2 Using Three-Dimensional Electron Diffraction and Precession Electron Diffraction. Symmetry (Basel) 2021. [DOI: 10.3390/sym13111989] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023] Open
Abstract
Among lithium battery cathode materials, Li1.2Ni0.13Mn0.54Co0.13O2 (LR-NMC) has a high theoretical capacity, but suffers from voltage and capacity fade during cycling. This is partially ascribed to transition metal cation migration, which involves the local transformation of the honeycomb layered structure to spinel-like nano-domains. Determination of the honeycomb layered/spinel phase ratio from powder X-ray diffraction data is hindered by the nanoscale of the functional material and the domains, diverse types of twinning, stacking faults, and the possible presence of the rock salt phase. Determining the phase ratio from transmission electron microscopy imaging can only be done for thin regions near the surfaces of the crystals, and the intense beam that is needed for imaging induces the same transformation to spinel as cycling does. In this article, it is demonstrated that the low electron dose sufficient for electron diffraction allows the collection of data without inducing a phase transformation. Using calculated electron diffraction patterns, we demonstrate that it is possible to determine the volume ratio of the different phases in the particles using a pair-wise comparison of the intensities of the reflections. Using this method, the volume ratio of spinel structure to honeycomb layered structure is determined for a submicron sized crystal from experimental three-dimensional electron diffraction (3D ED) and precession electron diffraction (PED) data. Both twinning and the possible presence of the rock salt phase are taken into account. After 150 charge–discharge cycles, 4% of the volume in LR-NMC particles was transformed irreversibly from the honeycomb layered structure to the spinel structure. The proposed method would be applicable to other multi-phase materials as well.
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21
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Gruene T, Mugnaioli E. 3D Electron Diffraction for Chemical Analysis: Instrumentation Developments and Innovative Applications. Chem Rev 2021; 121:11823-11834. [PMID: 34533919 PMCID: PMC8517952 DOI: 10.1021/acs.chemrev.1c00207] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Indexed: 01/26/2023]
Abstract
In the past few years, many exciting papers reported results based on crystal structure determination by electron diffraction. The aim of this review is to provide general and practical information to structural chemists interested in stepping into this emerging field. We discuss technical characteristics of electron microscopes for research units that would like to acquire their own instrumentation, as well as those practical aspects that appear different between X-ray and electron crystallography. We also include a discussion about applications where electron crystallography provides information that is different, and possibly complementary, with respect to what is available from X-ray crystallography.
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Affiliation(s)
- Tim Gruene
- University
of Vienna, Faculty of Chemistry,
Department of Inorganic Chemistry, AT-1090 Vienna, Austria
| | - Enrico Mugnaioli
- Center
for Nanotechnology Innovation@NEST, Istituto
Italiano di Tecnologia, Piazza S. Silvestro 12, IT-56127 Pisa, Italy
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22
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Ge M, Yang T, Wang Y, Carraro F, Liang W, Doonan C, Falcaro P, Zheng H, Zou X, Huang Z. On the completeness of three-dimensional electron diffraction data for structural analysis of metal-organic frameworks. Faraday Discuss 2021; 231:66-80. [PMID: 34227643 DOI: 10.1039/d1fd00020a] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Three-dimensional electron diffraction (3DED) has been proven as an effective and accurate method for structure determination of nano-sized crystals. In the past decade, the crystal structures of various new complex metal-organic frameworks (MOFs) have been revealed by 3DED, which has been the key to understand their properties. However, due to the design of transmission electron microscopes (TEMs), one drawback of 3DED experiments is the limited tilt range of goniometers, which often leads to incomplete 3DED data, particularly when the crystal symmetry is low. This drawback can be overcome by high throughput data collection using continuous rotation electron diffraction (cRED), where data from a large number of crystals can be collected and merged. Here, we investigate the effects of improving completeness on structural analysis of MOFs. We use ZIF-EC1, a zeolitic imidazolate framework (ZIF), as an example. ZIF-EC1 crystallizes in a monoclinic system with a plate-like morphology. cRED data of ZIF-EC1 with different completeness and resolution were analyzed. The data completeness increased to 92.0% by merging ten datasets. Although the structures could be solved from individual datasets with a completeness as low as 44.5% and refined to a high precision (better than 0.04 Å), we demonstrate that a high data completeness could improve the structural model, especially on the electrostatic potential map. We further discuss the strategy adopted during data merging. We also show that ZIF-EC1 doped with cobalt can act as an efficient electrocatalyst for oxygen reduction reactions.
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Affiliation(s)
- Meng Ge
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden.
| | - Taimin Yang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden.
| | - Yanzhi Wang
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Francesco Carraro
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Stremayrgasse 9, 8010 Graz, Austria
| | - Weibin Liang
- Department of Chemistry and the Centre for Advanced Nanomaterials, The University of Adelaide, Adelaide, 5005 South Australia, Australia
| | - Christian Doonan
- Department of Chemistry and the Centre for Advanced Nanomaterials, The University of Adelaide, Adelaide, 5005 South Australia, Australia
| | - Paolo Falcaro
- Institute of Physical and Theoretical Chemistry, Graz University of Technology, Stremayrgasse 9, 8010 Graz, Austria
| | - Haoquan Zheng
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an 710119, China
| | - Xiaodong Zou
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden.
| | - Zhehao Huang
- Department of Materials and Environmental Chemistry, Stockholm University, Stockholm SE-106 91, Sweden.
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23
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Three-Dimensional Electron Diffraction for Structural Analysis of Beam-Sensitive Metal-Organic Frameworks. CRYSTALS 2021. [DOI: 10.3390/cryst11030263] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Electrons interact strongly with matter, which makes it possible to obtain high-resolution electron diffraction data from nano- and submicron-sized crystals. Using electron beam as a radiation source in a transmission electron microscope (TEM), ab initio structure determination can be conducted from crystals that are 6–7 orders of magnitude smaller than using X-rays. The rapid development of three-dimensional electron diffraction (3DED) techniques has attracted increasing interests in the field of metal-organic frameworks (MOFs), where it is often difficult to obtain large and high-quality crystals for single-crystal X-ray diffraction. Nowadays, a 3DED dataset can be acquired in 15–250 s by applying continuous crystal rotation, and the required electron dose rate can be very low (<0.1 e s−1 Å−2). In this review, we describe the evolution of 3DED data collection techniques and how the recent development of continuous rotation electron diffraction techniques improves data quality. We further describe the structure elucidation of MOFs using 3DED techniques, showing examples of using both low- and high-resolution 3DED data. With an improved data quality, 3DED can achieve a high accuracy, and reveal more structural details of MOFs. Because the physical and chemical properties of MOFs are closely associated with their crystal structures, we believe 3DED will only increase its importance in developing MOF materials.
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24
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Krysiak Y, Marler B, Barton B, Plana-Ruiz S, Gies H, Neder RB, Kolb U. New zeolite-like RUB-5 and its related hydrous layer silicate RUB-6 structurally characterized by electron microscopy. IUCRJ 2020; 7:522-534. [PMID: 32431835 PMCID: PMC7201290 DOI: 10.1107/s2052252520003991] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2019] [Accepted: 03/20/2020] [Indexed: 06/11/2023]
Abstract
This study made use of a recently developed combination of advanced methods to reveal the atomic structure of a disordered nanocrystalline zeolite using exit wave reconstruction, automated diffraction tomography, disorder modelling and diffraction pattern simulation. By applying these methods, it was possible to determine the so far unknown structures of the hydrous layer silicate RUB-6 and the related zeolite-like material RUB-5. The structures of RUB-5 and RUB-6 contain the same dense layer-like building units (LLBUs). In the case of RUB-5, these building units are interconnected via additional SiO4/2 tetrahedra, giving rise to a framework structure with a 2D pore system consisting of intersecting 8-ring channels. In contrast, RUB-6 contains these LLBUs as separate silicate layers terminated by silanol/sil-oxy groups. Both RUB-6 and RUB-5 show stacking disorder with intergrowths of different polymorphs. The unique structure of RUB-6, together with the possibility for an interlayer expansion reaction to form RUB-5, make it a promising candidate for interlayer expansion with various metal sources to include catalytically active reaction centres.
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Affiliation(s)
- Yaşar Krysiak
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg University, Duesbergweg 10-14, Mainz D-55128, Germany
- Department of Materials and Geoscience, Technische Universität Darmstadt, Petersenstrasse 23, Darmstadt D-64287, Germany
- Department of Structure Analysis of the Institute of Physics, Czech Academy of Sciences, Cukrovarnická 10/112, Prague 162 00, Czech Republic
| | - Bernd Marler
- Departure of Geology, Mineralogy and Geophysics, Ruhr University Bochum, Universitätsstrasse 150, Bochum D-44801, Germany
| | - Bastian Barton
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg University, Duesbergweg 10-14, Mainz D-55128, Germany
| | - Sergi Plana-Ruiz
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg University, Duesbergweg 10-14, Mainz D-55128, Germany
- LENS, MIND/IN2UB, Engineer department: Electronics section, Universitat de Barcelona, Martí i Franquès 1, Barcelona 08028, Spain
| | - Hermann Gies
- Departure of Geology, Mineralogy and Geophysics, Ruhr University Bochum, Universitätsstrasse 150, Bochum D-44801, Germany
| | - Reinhard B. Neder
- Chair for Crystallography and Structural Physics, Friedrich-Alexander-Universität Erlangen-Nürnberg, Staudtstrasse 3, Erlangen D-91058, Germany
| | - Ute Kolb
- Institute of Inorganic Chemistry and Analytical Chemistry, Johannes Gutenberg University, Duesbergweg 10-14, Mainz D-55128, Germany
- Department of Materials and Geoscience, Technische Universität Darmstadt, Petersenstrasse 23, Darmstadt D-64287, Germany
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