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Majumdar D, Frontera A, Roy S, Sutradhar D. Experimental and Theoretical Survey of Intramolecular Spodium Bonds/σ/π-Holes and Noncovalent Interactions in Trinuclear Zn(II)-Salen Type Complex with OCN - Ions: A Holistic View in Crystal Engineering. ACS OMEGA 2024; 9:1786-1797. [PMID: 38222609 PMCID: PMC10785279 DOI: 10.1021/acsomega.3c08422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 11/13/2023] [Accepted: 11/28/2023] [Indexed: 01/16/2024]
Abstract
In this work, one new centrosymmetric trinuclear Zn(II) complex 1, [{(OCN)Zn(L)}2Zn], using a salen-type ligand (H2L) in the presence of OCN- was synthesized and characterized via elemental, spectral, SEM-EDX, and single-crystal X-ray diffraction (SCXRD) study. In 1, SCXRD reveals two different stereochemical environments of zinc metal ions; one terminal Zn(II) center adopts square pyramidal geometries with the Addison parameter (τ) 0.095, and the central Zn(II) is tetracoordinated tetrahedral geometry. This article provides evidence of the significance and presence of spodium bonds (SpBs) in solid-state crystal structures involving a pseudotetrahedral environment of the central Zn-atom. X-ray structures reveal intramolecular Zn···O SpBs caused by the methoxy (-OCH3) substituent O-atom adjacent to the coordinated phenoxy O-atom. These noncovalent interactions have been thoroughly studied using density functional theory calculations at the RI-BP86[2]-D3[3]/def2-TZVP level of theory that characterizes the nature of SpBs, including the Baders quantum theory of atoms-in-molecules "QTAIM", molecular electrostatic potential (MEP) surface, and noncovalent index plot (NCI). In addition, a unique complex-isomer-based theoretical model has been vividly employed to estimate the SpBs energy in the complex. Natural bond orbital (NBO) analysis also tries to establish the differentiation between σ-hole and π-hole SpBs' natures more authentically. The complex energy frameworks were used to investigate noncovalent interactions. To better understand the different intermolecular interactions, we conducted a Hirshfeld surface, which revealed N···H (15.4%) and O···H (9.1%) contacts and Zn···O (5.1%) (SpBs).
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Affiliation(s)
- Dhrubajyoti Majumdar
- Department
of Chemistry, Tamralipta Mahavidyalaya, Tamluk, West Bengal 721636, India
| | - Antonio Frontera
- Department
de Quimica, Universitat de les Illes Balears, Cra. de Valldemossa km 7.5, Palma de Mallorca (Baleares) 07122, Spain
| | - Sourav Roy
- Solid
State and Structural Chemistry Unit, Indian
Institute of Science, Bangalore 560012, India
| | - Dipankar Sutradhar
- School
of Advanced Sciences and Languages, VIT
Bhopal University, Kothrikalan, Sehore, Madhya Pradesh 466114, India
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Middya P, Karmakar M, Frontera A, Chattopadhyay S. Insight into the role of pseudo-halides as multiple hydrogen bond acceptors in the formation of supramolecular 1D assembly of di and trinuclear zinc complexes. Inorganica Chim Acta 2023. [DOI: 10.1016/j.ica.2023.121516] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
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3
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Synthesis and characterization of two polynuclear zinc(II) complexes and their applications in nitroaromatics sensing: An experimental and theoretical study. Inorganica Chim Acta 2022. [DOI: 10.1016/j.ica.2022.121186] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Dou L, Tong L, Yan YB, Deng YH, Dong WK. EXPERIMENTAL AND THEORETICAL STUDY OF A SANDWICH-LIKE PHENOXO-BRIDGED HETEROBIMETALLIC ZINC(II)–MANGANESE(III) 3-MeOSALPHEN COMPLEX. J STRUCT CHEM+ 2022. [DOI: 10.1134/s0022476622080054] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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5
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A mononuclear zinc complex with a diamine: Synthesis, characterization, self assembly, luminescence property and DFT calculations. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Karmakar M, Roy S, Chattopadhyay S. Synthesis, structure and properties of homo- and hetero-trinuclear complexes of salicylaldehyde-based di-Schiff bases. Polyhedron 2022. [DOI: 10.1016/j.poly.2022.115652] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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7
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Synthetic strategies and structures of zinc(II) complexes with di-azine ligands based on salicylaldehyde or its derivatives. RESULTS IN CHEMISTRY 2022. [DOI: 10.1016/j.rechem.2022.100620] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
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8
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Rahaman SJ, Chattopadhyay S. Synthetic strategy and structures of [Cr(CN)6]3−, [Mo(CN)8]3− and [W(CN)8]3− bridged di- and poly-nuclear transition metal-salen complexes: A review. RESULTS IN CHEMISTRY 2022. [DOI: 10.1016/j.rechem.2022.100469] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022] Open
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Basak T, Frontera A, Chattopadhyay S. Synthesis and characterization of a mononuclear zinc(ii) Schiff base complex: on the importance of C-H⋯π interactions. RSC Adv 2021; 11:30148-30155. [PMID: 35480293 PMCID: PMC9040895 DOI: 10.1039/d1ra03943a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 08/24/2021] [Indexed: 11/24/2022] Open
Abstract
A zinc(ii) complex, [ZnL(H2O)]·H2O {H2L = 2,2′-[(2,2-dimethyl-1,3-propanediyl)bis(nitrilomethylidyne)]bis[6-ethoxyphenol]} has been synthesized and characterized by UV-vis and IR spectroscopy. The structure of the complex has been confirmed by X-ray crystallography and the noncovalent interactions characterized using Hirshfeld surface analysis. In addition to the conventional H-bonds involving the Zn-coordinated and non-coordinated water molecules, interesting C–H⋯π interactions between the H-atoms belonging to aliphatic part of the ligand (2,2-dimethyl-1,3-propanediyl) and the Zn-coordinated aromatic rings are established. These interactions have been studied using DFT calculations (PBE0-D3/def2-TZVP) and characterized using molecular electrostatic potential (MEP) surfaces and the noncovalent interaction (NCI) plot index analyses. The strength of the C–H⋯π interaction in the solid state of [ZnL(H2O)]·H2O has been evaluated using DFT calculations and also analysed using the MEP surface and NCI plot index computational tool.![]()
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Affiliation(s)
- Tanmoy Basak
- Department of Chemistry, Inorganic Section, Jadavpur University Kolkata-700032 India
| | - Antonio Frontera
- Departamento de Química, Universitat de les Illes Balears Crta. de Valldemossa km 7.5 07122 Palma Baleares Spain
| | - Shouvik Chattopadhyay
- Department of Chemistry, Inorganic Section, Jadavpur University Kolkata-700032 India
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Xia X, Xia L, Zhang G, Li Y, Wang J, Xu J, Wu H. Synthesis, structures and fluorescent properties of two cadmium(II) coordination polymers based on bis(benzimidazole) and different anions. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129726] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Mondal I, Frontera A, Chattopadhyay S. On the importance of RH 3C⋯N tetrel bonding interactions in the solid state of a dinuclear zinc complex with a tetradentate Schiff base ligand. CrystEngComm 2021. [DOI: 10.1039/d0ce01864c] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The tetrel bonding and π-stacking interactions in a new dinuclear zinc complex using a tetradentate N2O2 donor Schiff base have been analysed energetically using DFT calculations and several computational tools.
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Affiliation(s)
- Ipsita Mondal
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata - 700032
- India
| | - Antonio Frontera
- Departament de Quimica
- Universitat de les Illes Balears
- 07122 Palma de Mallorca
- Spain
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12
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Majumdar D, Das D, Nag S, Bhattacharyya M, Singh DK, Parai D, Bankura K, Mishra D. A rare hetero-bimetallic Zn(II)/Ca(II) Schiff base complex: Synthesis, crystal structure, DFT, molecular docking and unveiling antimicrobial activity. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128951] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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13
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Coordination framework of cadmium(II), harvested from dithiolate-imidazole binary ligand systems: Crystal structure, Hirshfeld surface analysis, antibacterial, and DNA cleavage potential. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114838] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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14
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Mondal I, Chatterjee S, Chattopadhyay S. An acetate bridged centrosymmetric zinc(II) complex with a tetradentate reduced Schiff base ligand: Synthesis, characterization and ability to sense nitroaromatics by turn off fluorescence response. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114735] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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15
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Thakur S, Gil DM, Frontera A, Chattopadhyay S. Exploration of Br⋯O halogen bonding interactions in dinuclear vanadium(V) complexes with Schiff base ligands. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114676] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
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16
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Karmakar M, Chattopadhyay S. Synthesis, structure and nitroaromatic sensing ability of a trinuclear zinc complex with a reduced Schiff base ligand: Assessment of the ability of the ligand to sense zinc ion. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114639] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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17
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Roy S, Dutta T, Drew MG, Chattopadhyay S. Phenoxazinone synthase mimicking activity of a dinuclear copper(II) complex with a half salen type Schiff base ligand. Polyhedron 2020. [DOI: 10.1016/j.poly.2019.114311] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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18
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Karmakar M, Frontera A, Chattopadhyay S. Methylene spacer regulated variation in supramolecular assembly of zinc( ii) dicyanamide complexes with reduced Schiff base ligands: synthesis, structure and DFT study. CrystEngComm 2020. [DOI: 10.1039/d0ce01105c] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Three tetranuclear zinc dicyanamide complexes with three potential hexadentate reduced Schiff base ligands have been synthesized and characterized. The DFT study is devoted to the analysis of the competition between C–H⋯π and π⋯π interactions.
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Affiliation(s)
- Mainak Karmakar
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata – 700032
- India
| | - Antonio Frontera
- Departamento de Química
- Universitat de les Illes Balears
- 07122 Palma
- Spain
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19
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Polycatenation and self-penetration in nitrobenzene-detecting zinc and cadmium 4-carboxylatomethylbenzoate coordination polymers with dipyridylurea coligands. Polyhedron 2020. [DOI: 10.1016/j.poly.2019.114245] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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20
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Mondal I, Chattopadhyay S. Development of multi-metallic complexes using metal-salen complexes as building blocks. J COORD CHEM 2019. [DOI: 10.1080/00958972.2019.1695048] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Ipsita Mondal
- Department of Chemistry, Jadavpur University, Kolkata, India
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21
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Karmakar M, Roy S, Chattopadhyay S. A series of trinuclear zinc(ii) complexes with reduced Schiff base ligands: turn-off fluorescent chemosensors with high selectivity for nitroaromatics. NEW J CHEM 2019. [DOI: 10.1039/c9nj02060h] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A series of trinuclear zinc(ii) complexes have been synthesized and characterized by X-ray crystallography. The ability of the complexes to act as sensors for the detection of nitroaromatics in DMF has been assessed.
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Affiliation(s)
- Mainak Karmakar
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata – 700032
- India
| | - Sourav Roy
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata – 700032
- India
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22
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Karmakar M, Basak T, Chattopadhyay S. Phosphatase-mimicking activity of a unique penta-nuclear zinc(ii) complex with a reduced Schiff base ligand: assessment of its ability to sense nitroaromatics. NEW J CHEM 2019. [DOI: 10.1039/c8nj06549g] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A penta-nuclear zinc(ii) complex has been synthesized and characterized. The complex has shown good phosphatase-mimicking activity, which has been evaluated spectrophotometrically. The complex also behaves as a sensor for the detection of nitroaromatics via turn-off fluorescence response.
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Affiliation(s)
- Mainak Karmakar
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata – 700032
- India
| | - Tanmoy Basak
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata – 700032
- India
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