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Scheiner S. Adjusting the balance between hydrogen and chalcogen bonds. Phys Chem Chem Phys 2022; 24:28944-28955. [PMID: 36416473 DOI: 10.1039/d2cp04591e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
A complex is assembled which pairs a carboxyl group of X1COOH with a 1,2,5-chalcogenadiazole ring containing substituents on its C atoms. The OH of the carboxyl group donates a proton to a N atom of the ring to form a OH⋯N H-bond (HB), while its carbonyl O engages in a Y⋯O chalcogen bond (ChB) with the ring in which Y = S, Se, Te. The ChB is strengthened by enlarging the size of the Y atom from S to Se to Te. Placement of an electron-withdrawing group (EWG) X1 on the acid strengthens the HB while weakening the ChB; the reverse occurs when EWGs are placed on the ring. By selection of the proper substituents on the two units, it is possible to achieve a near perfect balance between the strengths of these two bonds. These bond strengths are also reflected in the NMR spectroscopic properties of the chemical shielding of the various atoms and the coupling between the nuclei directly involved in each bond.
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Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322-0300, USA.
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Zhang L, Zeng Y, Li X, Zhang X. Noncovalent interactions between benzochalcogenadiazoles and nitrogen bases. J Mol Model 2022; 28:248. [PMID: 35932432 DOI: 10.1007/s00894-022-05247-z] [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: 06/21/2022] [Accepted: 07/25/2022] [Indexed: 11/30/2022]
Abstract
A theoretical study has been carried out on the intermolecular interactions between tetrafluoro-benzochalcogenadiazoles (chalcogen = S, Se, Te) and a series of nitrogen bases (FCN, ClCN, NP, trans-N2H2, pyridine, pyrazole, imidazole) at the B97-D3/def2-TZVP level, to obtain a better insight into the nature and strength of Ch···N chalcogen bond and secondary interaction in the binary and 1:2 ternary complexes. The dispersion force plays a prominent role on the stability of the sulfur complexes, and the electrostatic effect enhanced for the heavier chalcogen complexes. Most of intermolecular bonds display the characters of closed-shell and noncovalent interaction. For the complexes involving pyridine and imidazole, chalcogen bond is stronger than hydrogen bond, while the strength of chalcogen bond is equivalent to the secondary interaction for other complexes. With the addition of nitrogen base in the 1:2 complexes, chalcogen bond is weakened, while the secondary interaction remains unchanged. In the 1:2 complexes formed by pyridine and imidazole, stronger chalcogen bond results in larger negative cooperativity than that of other complexes.
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Affiliation(s)
- Lili Zhang
- College of Chemistry and Materials Science, Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, People's Republic of China
| | - Yanli Zeng
- College of Chemistry and Materials Science, Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, People's Republic of China
| | - Xiaoyan Li
- College of Chemistry and Materials Science, Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, People's Republic of China
| | - Xueying Zhang
- College of Chemistry and Materials Science, Hebei Key Laboratory of Inorganic Nano-materials, Hebei Normal University, Shijiazhuang, 050024, People's Republic of China.
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Ren B, Shi Y, Lu Y, Xu Z, Liu H. Double pentavalent pnictogen-bonding interactions in the homodimers of pnictogenoxide species: CSD search and theoretical study. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2022.113636] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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Liang J, Shi Y, Lu Y, Xu Z, Liu H. Square tetravalent chalcogen bonds in dimeric aggregates: a joint crystallographic survey and theoretical study. CrystEngComm 2022. [DOI: 10.1039/d1ce01364e] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Square tetravalent chalcogen bonds were systematically investigated through a combination of crystal structure analysis and DFT calculations.
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Affiliation(s)
- Jinwei Liang
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Yulong Shi
- Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, 201203, China
| | - Yunxiang Lu
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai, 200237, China
| | - Zhijian Xu
- Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, 201203, China
| | - Honglai Liu
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai, 200237, China
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Eckstein BJ, Brown LC, Noll BC, Moghadasnia MP, Balaich GJ, McGuirk CM. A Porous Chalcogen-Bonded Organic Framework. J Am Chem Soc 2021; 143:20207-20215. [PMID: 34818002 DOI: 10.1021/jacs.1c08642] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The manner of bonding between constituent atoms or molecules invariably influences the properties of materials. Perhaps no material family is more emblematic of this than porous frameworks, wherein the namesake modes of connectivity give rise to discrete subclasses with unique collections of properties. However, established framework classes often display offsetting advantages and disadvantages for a given application. Thus, there exists no universally applicable material, and the discovery of alternative modes of framework connectivity is highly desirable. Here we show that chalcogen bonding, a subclass of σ-hole bonding, is a viable mode of connectivity in low-density porous frameworks. Crystallization studies with the triptycene tris(1,2,5-selenadiazole) molecular tecton reveal how chalcogen bonding can template high-energy lattice structures and how solvent conditions can be rationalized to obtain molecularly programmed porous chalcogen-bonded organic frameworks (ChOFs). These results provide the first evidence that σ-hole bonding can be used to advance the diversity of porous framework materials.
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Affiliation(s)
- Brian J Eckstein
- Department of Chemistry, Colorado School of Mines, Golden, Colorado 80401, United States
| | - Loren C Brown
- Department of Chemistry and Chemistry Research Center, Laboratories for Advanced Materials, United States Air Force Academy, Colorado Springs, Colorado 80840, United States
| | - Bruce C Noll
- Bruker AXS Inc., 5465 East Cheryl Parkway, Madison, Wisconsin 53711, United States
| | - Michael P Moghadasnia
- Department of Chemistry, Colorado School of Mines, Golden, Colorado 80401, United States
| | - Gary J Balaich
- Department of Chemistry and Chemistry Research Center, Laboratories for Advanced Materials, United States Air Force Academy, Colorado Springs, Colorado 80840, United States
| | - C Michael McGuirk
- Department of Chemistry, Colorado School of Mines, Golden, Colorado 80401, United States
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Wen C, Shi Y, Lu Y, Xu Z, Liu H. 2Ch-2N Square Chalcogen Bonds between Pairs of Radicals: A Case Study of 1,2,3,5-Dichalcogenadiazolyl Derivatives. J Phys Chem A 2021; 125:8572-8580. [PMID: 34555901 DOI: 10.1021/acs.jpca.1c05439] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Specific 2Ch-2N square interactions between pairs of heterocyclic rings have been the target of many recent crystallographic and computational studies. According to our search of the Cambridge Structural Database (CSD), a number of crystal structures of the derivatives of 1,2,3,5-dichalcogenadiazolyl (DChDA) radicals, which consist of 2Ch-2N square motifs in the dimer units, were extracted. On the basis of the CSD survey results, a set of dimeric complexes of DChDA-based radicals with diverse aryl substituents at the 4-position were selected to model such squares. Similar to that in conventional chalcogen bonds, 2Ch-2N square interactions become stronger as the atomic size of chalcogens increases. Both the orbital term and electrostatics contribute significantly to the attraction of these interactions, while the dispersion contribution is small but unneglectable. Some five-membered aryl substituents, such as imidazole, thiazole, and oxazole, produce markedly enhanced square interactions, leading to a pronounced influence on the distribution of spin populations on DChDA rings.
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Affiliation(s)
- Congtao Wen
- State Key Laboratory of Chemical Engineering and School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Yulong Shi
- Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Yunxiang Lu
- State Key Laboratory of Chemical Engineering and School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Zhijian Xu
- Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Honglai Liu
- State Key Laboratory of Chemical Engineering and School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
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Wang R, Lu Y, Xu Z, Liu H. Triangular Interchalcogen Interactions: A Joint Crystallographic Data Analysis and Theoretical Study. J Phys Chem A 2021; 125:4173-4183. [PMID: 33957751 DOI: 10.1021/acs.jpca.1c03244] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Noncovalent chalcogen-chalcogen interactions are being actively investigated from both crystallographic and theoretical viewpoints in recent years. According to our search of the Cambridge Structural Database (CSD), a huge number of crystal structures containing triangular Ch3 synthons were extracted. On the basis of the results of the CSD survey, a series of trimeric complexes of organic divalent chalcogen molecules were selected to model such interaction motifs. Similar to that in conventional chalcogen bonds, triangular interchalcogen interactions become gradually stronger along the sequence of Ch = S, Se, Te. Particularly, hydrogen bonds between the chalcogen centers and the H atoms in the substituents occur, which play a significant role in stabilizing the Ch3 motifs in the trimers. Through multibody energy calculations, the complexes under study exhibit no or only weak cooperativity. Finally, the differences between the Ch3 interaction motifs and the well-studied windmill X3 bonding (X means halogen and this is halogen bond) patterns were elucidated.
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Affiliation(s)
- Ranran Wang
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Yunxiang Lu
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Zhijian Xu
- Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Honglai Liu
- Key Laboratory for Advanced Materials, School of Chemistry & Molecular Engineering, East China University of Science and Technology, Shanghai 200237, China
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Wu H, Lu Y, Peng C, Xu Z, Liu H. Theoretical study of the interplay between double chalcogen-bonding interactions and halogen bonds in ditopic molecular module systems. COMPUT THEOR CHEM 2021. [DOI: 10.1016/j.comptc.2021.113182] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Biot N, Bonifazi D. Concurring Chalcogen‐ and Halogen‐Bonding Interactions in Supramolecular Polymers for Crystal Engineering Applications. Chemistry 2020; 26:2904-2913. [DOI: 10.1002/chem.201904762] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Indexed: 12/14/2022]
Affiliation(s)
- Nicolas Biot
- School of Chemistry Cardiff University Park Place CF10 3AT Cardiff UK
| | - Davide Bonifazi
- School of Chemistry Cardiff University Park Place CF10 3AT Cardiff UK
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Romito D, Biot N, Babudri F, Bonifazi D. Non-covalent bridging of bithiophenes through chalcogen bonding grips. NEW J CHEM 2020. [DOI: 10.1039/c9nj06202e] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
In this work, chalcogen functionalized dithiophenes, equipped on both extremities with chalcogen-bonding recognition heterocycles, have been prepared following two synthetic pathways.
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Affiliation(s)
| | - Nicolas Biot
- School of Chemistry
- Cardiff University
- Cardiff CF10 3AT
- UK
| | - Francesco Babudri
- Dipartimento di Chimica
- Università degli Studi Aldo Moro di Bari
- 70126 Bari
- Italy
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