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Topological Analysis and Structural Determination of 3D Covalent Organic Frameworks

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3D covalent organic frameworks (3D COFs) constitute a new type of crystalline materials that consist of a range of porous structures with numerous applications in the fields of adsorption, separation, and catalysis. However, because of the complexity of the three‐periodic net structure, it is desirable to develop a thorough structural comprehension, along with a means to precisely determine the actual structure. Indeed, such advancements would considerably contribute to the rational design and application of 3D COFs. In this review, the reported topologies of 3D COFs are introduced and categorized according to the configurations of their building blocks, and a comprehensive overview of diffraction‐based structural determination methods is provided. The current challenges and future prospects for these materials will also be discussed.
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Topological Analysis and Structural Determination of 3D
Covalent Organic Frameworks
Zi’ang Guo, Zeyue Zhang, and Junliang Sun*
3D covalent organic frameworks (3D COFs) constitute a new type of
crystalline materials that consist of a range of porous structures with
numerous applications in the fields of adsorption, separation, and catalysis.
However, because of the complexity of the three-periodic net structure, it is
desirable to develop a thorough structural comprehension, along with a
means to precisely determine the actual structure. Indeed, such
advancements would considerably contribute to the rational design and
application of 3D COFs. In this review, the reported topologies of 3D COFs are
introduced and categorized according to the configurations of their building
blocks, and a comprehensive overview of diffraction-based structural
determination methods is provided. The current challenges and future
prospects for these materials will also be discussed.
1. Introduction
Covalent organic frameworks (COFs) are a new class of porous
crystalline materials composed of light elements connected
by covalent bonds.[1]Due to their composition and porous
nature, COFs exhibit a number of desirable properties, in-
cluding low densities, high surface areas, and designable
structures.[2]In addition, they have demonstrated excellent
performances in various application fields, including adsorp-
tion and separation,[3–6]energy storage,[7–10 ]catalysis,[11–17]mass
transfer,[18–22]sensing,[23–27]and film devices.[28–30]Based on their
dimensional characteristics, COFs can be classified into 2D struc-
tures with 𝜋𝜋stacking and 1D channels, or 3D structures, con-
taining interpenetrated frameworks and covalent bonds that ex-
tend across the skeleton.[31]Among these, the 3D COFs, which
exhibit more extensive structures, tend to contain more abundant
channels, greater numbers of active sites, lower densities, and
larger specific surface areas, thereby indicating their broader ap-
plication prospects.[31–35]
However, 3D COFs have received less research attention than
2D COFs owing to the challenges associated with their struc-
tures. For example, due to the fact that COFs are connected by
Z. Guo, Z. Zhang, J. Sun
College of Chemistry and Molecular Engineering
Beijing National Laboratory of Molecular Sciences
Peking University
Beijing 100871, P. R. China
E-mail: junliang.sun@pku.edu.cn
The ORCID identification number(s) for the author(s) of this article
can be found under https://doi.org/10.1002/adma.202312889
DOI: 10.1002/adma.202312889
irreversible covalent bonds, it is extremely
difficult to obtain single crystals that are
large enough for structural determina-
tion by single-crystal X-ray diffraction (SC-
XRD). Therefore, their structures are usu-
ally verified by structural modeling and
refinement of the powder X-ray diffrac-
tion (PXRD) data.[36]In the case of 2D
COFs, the possible topologies are lim-
ited, and therefore the topology of a cer-
tain COF can be predicted according to
the geometric features of the building
blocks, and can subsequently be verified
by PXRD measurements. However, 3D
COFs, which are generated by the conden-
sation of nonplanar building blocks, pos-
sess more topological possibilities than 2D
COFs, thereby rendering it more difficult to
rationally design and predict their topologies, especially in the
case of 3D COFs prepared from highly connected building
blocks.[37]It is therefore important to obtain an improved under-
standing of the topologies of 3D COFs and develop appropriate
structural determination techniques to promote further research
into these materials. Thus, in this review, we clearly describe the
three-periodic net structures and topologies that may exist in 3D
COF structures, and further analyze the symmetric relationship
between the monomers and topologies of the target 3D COFs,
with inference on the underlying design regularities of 3D COFs.
Subsequently, we introduce useful diffraction techniques for de-
termining the structures of 3D COFs in practical cases. Finally,
we present prospects for future development in this area.
2. What Is Topology?
The synthesis of COFs can be regarded as a type of crystal engi-
neering that involves the rational synthesis of target structures
from specific monomers under suitable reaction conditions.[38]
In practice, 3D COFs are built from organic monomers, which
are also referred to as building blocks or building units. Two-
connected (2-c) monomers are often referred to as linkers, and
according to reticular chemistry,[39–47]building units and linkers
can be considered as nodes (i.e., vertices) and links (i.e., edges) re-
spectively. Accordingly, 3D COFs can be described as three-period
nets.[37]These nets are characterized mainly by the types of ver-
tices, edges, faces, and tilings, from 0D to 3D, and are widely
known as topologies. Such topologies are easily differentiated
based on the formation and numbers of these four indices.[39,40]
Vertices with different coordination numbers (CN) are the ba-
sic elements of topologies, while edges are often characterized by
Adv. Mater. 2024,36, 2312889 © 2024 Wiley-VCH GmbH
2312889 (1 of 26)
Article
Constructing three dimensional (3D) covalent organic frameworks (COFs) through the entanglement of two dimensional (2D) nets is a promising but underdeveloped strategy. Herein, we report the design and synthesis of a fluorine functionalized 3D COF (3D-An-COF-F) formed by entangled 2D sql nets. The structure of 3D-An-COF-F was determined by the combination of continuous rotation electron diffraction technique and modelling based on the chemical information from real space. Interestingly, compared to the isostructural 3D-An-COF without F atoms, 3D-An-COF-F showed an improved CO2 sorption ability and higher CO2/N2 selectivity. Our study not only demonstrated the generality of constructing 3D COFs with entangled 2D nets by introducing bulky groups vertically in planar building blocks, but also will expand the diversity of 3D COFs for various applications.
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Covalent organic frameworks (COFs) have wide‐ranging applications, and their host–guest interactions play an essential role in the achievement of COF functions. To investigate these host–guest interactions, it is necessary to locate all atoms, especially hydrogen atoms. However, it is difficult to determine the hydrogen atomic positions in COFs because of the complexities in synthesizing high‐quality large single crystals. Three‐dimensional electron diffraction (3D ED) has unique advantages for the structural determination of nanocrystals and identification of light atoms. In this study, it was demonstrated for the first time that the hydrogen atoms of a COF, not only on the framework but also on the guest molecule, can be located by 3D ED using continuous precession electron diffraction tomography (cPEDT) under cryogenic conditions. The host–guest interactions were clarified with the location of the hydrogen atoms. These findings provide novel insights into the investigation of COFs.
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Three-dimensional (3D) covalent organic frameworks (COFs) possess higher surface areas, more abundant pore channels, and lower density compared to their two-dimensional counterparts which makes the development of 3D COFs interesting from a fundamental and practical point of view. However, the construction of highly crystalline 3D COF remains challenging. At the same time, the choice of topologies in 3D COFs is limited by the crystallization problem, the lack of availability of suitable building blocks with appropriate reactivity and symmetries, and the difficulties in crystalline structure determination. Herein, we report two highly crystalline 3D COFs with pto and mhq-z topologies designed by rationally selecting rectangular-planar and trigonal-planar building blocks with appropriate conformational strains. The pto 3D COFs show a large pore size of 46 Å with an extremely low calculated density. The mhq-z net topology is solely constructed from totally face-enclosed organic polyhedra displaying a precise uniform micropore size of 1.0 nm. The 3D COFs show a high CO2 adsorption capacity at room temperature and can potentially serve as promising carbon capture adsorbents. This work expands the choice of accessible 3D COF topologies, enriching the structural versatility of COFs.
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Piezochromic materials with pressure‐dependent photoluminescence tuning properties are important in many fields, such as mechanical sensors, security papers, and storage devices. Covalent organic frameworks (COFs), as an emerging class of crystalline porous materials (CPMs) with structural dynamics and tunable photophysical properties, are suitable for designing piezochromic materials, but there are few related studies. Herein, we report two dynamic three‐dimensional COFs based on aggregation‐induced emission (AIE) or aggregation‐caused quenching (ACQ) chromophores, termed JUC‐635 and JUC‐636 (JUC=Jilin University China), and for the first time, study their piezochromic behavior by diamond anvil cell technique. Due to the various luminescent groups, JUC‐635 has completely different solvatochromism and molecular aggregation behavior in the solvents. More importantly, JUC‐635 with AIE effect exhibits a sustained fluorescence upon pressure increase (≈3 GPa), and reversible sensitivity with high‐contrast emission differences (Δλem=187 nm) up to 12 GPa, superior to other CPMs reported so far. Therefore, this study will open a new gate to expand the potential applications of COFs as exceptional piezochromic materials in pressure sensing, barcoding, and signal switching.
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Herein, we report the introduction of steric hindrance in molecular building blocks to prevent π···π stacking, thus allowing two-dimensional (2D) covalent organic sheets to form three-dimensional (3D) covalent organic frameworks (COFs) through entanglement. Starting from the rationally designed precursors containing a bulky anthracene unit in the vertical direction, a highly crystalline COF (3D-An-COF) was successfully synthesized. Very interestingly, 3D-An-COF was determined as an entangled 2D square net (sql) structure, and the high-resolution data (1.1 Å) obtained by the continuous rotation electron diffraction technique allowed us to directly locate all non-hydrogen atoms. Structurally, the presence of an anthracene group outside the C2h symmetry plane strongly reduces the π···π interactions and promotes the formation of square entanglements. In addition, 3D-An-COF is fluorescent and can be used as a sensor to detect the trace amount of antibiotics in water. This study provides a new strategy for the structural diversification of 3D COFs and will certainly motivate us to construct more entangled COFs for interesting applications in the future.
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Three-dimensional covalent organic frameworks (3D COFs) have been of great interest due to their inherent numerous open sites and pore confinement effect. However, it has remained challenging to build 3D frameworks via interdigitation (also known as inclined interpenetration) by generating an entangled network formed by multiple 2D layers inclined with respect to each other. Herein, we report the first case of constructing a 3D COF, termed COF-904, through interdigitating 2D hcb nets, which was formed via [3+2] imine condensation reactions by the use of 1,3,5-triformylbenzene and 2,3,5,6-tetramethyl-1,4-phenylenediamine. The single-crystal structure of COF-904 is solved, and the locations of all non-hydrogen atoms are determined by 3D electron diffraction with a resolution up to 0.8 Å. These results not only broaden the strategy for achieving 3D COFs via interdigitation but also demonstrate that structurally complex extended frameworks can arise from simple molecules.
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Dimensional isomers, defined in reticular chemistry as frameworks consisting of identical molecular building blocks but extended in two or three dimensions (2D or 3D), are an important type of framework isomers that have never been isolated. Herein, we report the crystallization of dimensional isomers in covalent organic frameworks (COFs) for the first time. By polymerization of the same molecular building blocks at different temperatures, both 2D and 3D COFs were successfully constructed due to the temperature-induced conformational changes of precursors from planar to tetrahedral. In addition, the non-fluorescent 2D COF can be gradually converted into the fluorescent 3D COF by increasing the temperature under solvothermal conditions. Therefore, it is reasonable to crystallize the dimensional isomers of reticular materials by controlling the conformation of molecular building blocks, and more examples can be expected. Since the obtained dimensional isomers show different properties and functions, this work will definitely motivate us to design reticular materials for target applications in the future.
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Although isomerism is a typical and significant phenomenon in organic chemistry, it is rarely found in covalent organic framework (COF) materials. Herein, for the first time, we report a controllable synthesis of topological isomers in three-dimensional COFs via a distinctive tetrahedral building unit under different solvents. Based on this strategy, both isomers with a dia or qtz net (termed JUC-620 and JUC-621) have been obtained, and their structures are determined by combining powder X-ray diffraction and transmission electron microscopy. Remarkably, these architectures show a distinct difference in their porous features; for example, JUC-621 with a qtz net exhibits permanent mesopores (up to ∼23 Å) and high surface area (∼2060 m2 g-1), which far surpasses those of JUC-620 with a dia net (pore size of ∼12 Å and surface area of 980 m2 g-1). Furthermore, mesoporous JUC-621 can remove dye molecules efficiently and achieves excellent iodine adsorption (up to 6.7 g g-1), which is 2.3 times that of microporous JUC-620 (∼2.9 g g-1). This work thus provides a new way for constructing COF isomers and promotes structural diversity and promising applications of COF materials.