1
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Ma W, Kirchhoff JL, Strohmann C, Grabe B, Loh CCJ. Cooperative Bifurcated Chalcogen Bonding and Hydrogen Bonding as Stereocontrolling Elements for Selective Strain-Release Septanosylation. J Am Chem Soc 2023; 145:26611-26622. [PMID: 38032866 PMCID: PMC10722516 DOI: 10.1021/jacs.3c06984] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2023] [Revised: 11/08/2023] [Accepted: 11/08/2023] [Indexed: 12/02/2023]
Abstract
The exploitation of noncovalent interactions (NCIs) is emerging as a vital handle in tackling broad stereoselectivity challenges in synthesis. In particular, there has been significant recent interest in the harnessing of unconventional NCIs to surmount difficult selectivity challenges in glycosylations. Herein, we disclose the exploitation of an unconventional bifurcated chalcogen bonding and hydrogen bonding (HB) network, which paves the way for a robust catalytic strategy into biologically useful seven-membered ring sugars. Through 13C nuclear magnetic resonance (NMR) in situ monitoring, NMR titration experiments, and density functional theory (DFT) modeling, we propose a remarkable contemporaneous activation of multiple functional groups consisting of a bifurcated chalcogen bonding mechanism working hand-in-hand with HB activation. Significantly, the ester moiety installed on the glycosyl donor is critical in the establishment of the postulated ternary complex for stereocontrol. Through the 13C kinetic isotopic effect and kinetic studies, our data corroborated that a dissociative SNi-type mechanism forms the stereocontrolling basis for the excellent α-selectivity.
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Affiliation(s)
- Wenpeng Ma
- Abteilung
Chemische Biologie, Max-Planck-Institut
für Molekulare Physiologie, Otto-Hahn-Straße 11, Dortmund 44227, Germany
- Fakultät
für Chemie und Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Straße 4a, Dortmund 44227, Germany
| | - Jan-Lukas Kirchhoff
- Fakultät
für Chemie und Chemische Biologie, Anorganische Chemie, Technische Universität Dortmund, Otto-Hahn-Straße 6, Dortmund 44227, Germany
| | - Carsten Strohmann
- Fakultät
für Chemie und Chemische Biologie, Anorganische Chemie, Technische Universität Dortmund, Otto-Hahn-Straße 6, Dortmund 44227, Germany
| | - Bastian Grabe
- Fakultät
für Chemie und Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Straße 4a, Dortmund 44227, Germany
| | - Charles C. J. Loh
- Abteilung
Chemische Biologie, Max-Planck-Institut
für Molekulare Physiologie, Otto-Hahn-Straße 11, Dortmund 44227, Germany
- Fakultät
für Chemie und Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Straße 4a, Dortmund 44227, Germany
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2
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Majumdar D, Dubey A, Tufail A, Sutradhar D, Roy S. Synthesis, spectroscopic investigation, molecular docking, ADME/T toxicity predictions, and DFT study of two trendy ortho vanillin-based scaffolds. Heliyon 2023; 9:e16057. [PMID: 37251479 PMCID: PMC10220319 DOI: 10.1016/j.heliyon.2023.e16057] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2023] [Revised: 04/27/2023] [Accepted: 05/04/2023] [Indexed: 05/31/2023] Open
Abstract
In this article, we have synthesized two contemporary ortho-vanillin-based Salen-type ligands (H2L1/H2L2) characterized by modern spectroscopic tools. EDX analysis supports the elemental composition (C, N, O, and Br). SEM examined the morphology of the synthesized compounds. The molecular geometry was optimized in the gas phase using B3LYP-D3/6-311G (d, p) level. The global reactivity parameters, HOMO-LUMO energy gap (Δ), atomic properties, MESP, and ADME/T, vividly explore the chemical reactivity and toxicity of two Salen-type ligands. The DFT simulated IR/NMR characterized essential structural assignments, and UV-Visible spectra were employed to predict the optical properties. The article demonstrated in silico molecular docking against the Gm + ve Bacillus subtilis (6UF6), and Gm -ve Proteus Vulgaris establishes the ligand binding ability with essential amino acids through conventional H-bonding or other significant interactions. The docking simulation is compared for two compounds better than the control drugs and confirms the antimicrobial activity. The theoretical drug-like properties have been explored in-depth by ADME/T using the SWISSADME database. The analysis estimated the molecule's lipophilicity, the consensus P0/W, and water solubility. Thus, using various pharmaco-logical parameters, toxicity explains where the electron-withdrawing Br group plays a more toxic effect in H2L2 than in H2L1.
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Affiliation(s)
- Dhrubajyoti Majumdar
- Department of Chemistry, Tamralipta Mahavidyalaya, Tamluk, 721636, West Bengal, India
- Department of Chemistry and Chemical Biology, Indian Institute of Technology (Indian School of Mines), Dhanbad, Jharkhand, 826004, India
| | - Amit Dubey
- Computational Chemistry and Drug Discovery Division, Quanta Calculus, Greater Noida, Uttar Pradesh, 274203, India
- Department of Pharmacology, Saveetha Dental College, and Hospital, Saveetha Institute of Medical and Technical Sciences, Chennai, Tamil Nadu, 600077, India
| | - Aisha Tufail
- Computational Chemistry and Drug Discovery Division, Quanta Calculus, Greater Noida, Uttar Pradesh, 274203, India
| | - Dipankar Sutradhar
- School of Advanced Sciences and Languages, VIT Bhopal University, Kothrikalan, Sehore, Madhya Pradesh, 466114, India
| | - Sourav Roy
- Solid State and Structural Chemistry Unit, Indian Institute of Science, Bangalore, 560 012, India
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3
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Wang Z, Wang W, Li HB. Tuning of the Electrostatic Potentials on the Surface of the Sulfur Atom in Organic Molecules: Theoretical Design and Experimental Assessment. Molecules 2023; 28:molecules28093919. [PMID: 37175329 PMCID: PMC10180200 DOI: 10.3390/molecules28093919] [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: 03/29/2023] [Revised: 05/01/2023] [Accepted: 05/04/2023] [Indexed: 05/15/2023] Open
Abstract
Noncovalent sulfur interactions are ubiquitous and play important roles in medicinal chemistry and organic optoelectronic materials. Quantum chemical calculations predicted that the electrostatic potentials on the surface of the sulfur atom in organic molecules could be tuned through the through-space effects of suitable substituents. This makes it possible to design different types of noncovalent sulfur interactions. The theoretical design was further confirmed by X-ray crystallographic experiments. The sulfur atom acts as the halogen atom acceptor to form the halogen bond in the cocrystal between 2,5-bis(2-pyridyl)-1,3,4-thiadiazole and 1,4-diiodotetrafluorobenzene, whereas it acts as the chalcogen atom donor to form the chalcogen bond in the cocrystal between 2,5-bis(3-pyridyl)-1,3,4-thiadiazole and 1,3,5-trifluoro-2,4,6-triiodobenzene.
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Affiliation(s)
- Ziyu Wang
- SDU-ANU Joint Science College, Shandong University, Weihai 264209, China
| | - Weizhou Wang
- College of Chemistry and Chemical Engineering, Luoyang Normal University, Luoyang 471934, China
| | - Hai-Bei Li
- SDU-ANU Joint Science College, Shandong University, Weihai 264209, China
- Marine College, Shandong University, Weihai 264209, China
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4
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Competition and interplay between Hydrogen, Tetrel, and halogen bonds from interactions of COCl2 and HX (X = F, Cl, Br, and I). COMPUT THEOR CHEM 2023. [DOI: 10.1016/j.comptc.2023.114099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]
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5
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Kiruthika S, Sundar P, Ravindran P. Structural phase stability and thermodynamical properties of transition metal complex hydrides Na2MgTMH7 (TM=Sc−Cu) for hydrogen storage applications. J SOLID STATE CHEM 2023. [DOI: 10.1016/j.jssc.2023.123867] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023]
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6
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Structural, electronic, optical and mechanical properties of oxide-based perovskite ABO3 (A = Cu, Nd and B = Sn, Sc): A DFT study. J SOLID STATE CHEM 2023. [DOI: 10.1016/j.jssc.2022.123650] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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7
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Islam S, Das P, Tripathi S, Mukhopadhyay S, Kumar Seth S. Exploring Solid‐State Supramolecular Architectures of Penta(carboxymethyl)diethylenetriamine: Experimental Observation and Theoretical Studies. ChemistrySelect 2022. [DOI: 10.1002/slct.202203396] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Samiul Islam
- Department of Physics Jadavpur University Kolkata 700032 India
| | - Prantika Das
- Department of Physics Jadavpur University Kolkata 700032 India
| | - Suparna Tripathi
- Department of Physics Jadavpur University Kolkata 700032 India
- Department of Chemistry Jadavpur University Kolkata 700032 India
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8
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Osmanov VK, Chipinsky EV, Khrustalev VN, Novikov AS, Askerov RK, Chizhov AO, Borisova GN, Borisov AV, Grishina MM, Kurasova MN, Kirichuk AA, Peregudov AS, Kritchenkov AS, Tskhovrebov AG. Facile Access to 2-Selenoxo-1,2,3,4-tetrahydro-4-quinazolinone Scaffolds and Corresponding Diselenides via Cyclization between Methyl Anthranilate and Isoselenocyanates: Synthesis and Structural Features. Molecules 2022; 27:molecules27185799. [PMID: 36144534 PMCID: PMC9504104 DOI: 10.3390/molecules27185799] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Revised: 09/01/2022] [Accepted: 09/02/2022] [Indexed: 11/16/2022] Open
Abstract
A practical method for the synthesis of 2-selenoxo-1,2,3,4-tetrahydro-4-quinazolinone was reported. The latter compounds were found to undergo facile oxidation with H2O2 into corresponding diselenides. Novel organoselenium derivatives were characterized by the 1H, 77Se, and 13C NMR spectroscopies, high-resolution electrospray ionization mass spectrometry, IR, elemental analyses (C, H, N), and X-ray diffraction analysis for several of them. Novel heterocycles exhibited multiple remarkable chalcogen bonding (ChB) interactions in the solid state, which were studied theoretically.
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Affiliation(s)
- Vladimir K. Osmanov
- Department of Chemistry, R.E. Alekseev Nizhny Novgorod State Technical University, Minin St., 24, 603155 Nizhny Novgorod, Russia
| | - Evgeniy V. Chipinsky
- Department of Chemistry, R.E. Alekseev Nizhny Novgorod State Technical University, Minin St., 24, 603155 Nizhny Novgorod, Russia
| | - Victor N. Khrustalev
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prosp., 47, 119334 Moscow, Russia
| | - Alexander S. Novikov
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab., 7/9, 199034 Saint Petersburg, Russia
| | | | - Alexander O. Chizhov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prosp., 47, 119334 Moscow, Russia
| | - Galina N. Borisova
- Department of Chemistry, R.E. Alekseev Nizhny Novgorod State Technical University, Minin St., 24, 603155 Nizhny Novgorod, Russia
| | - Alexander V. Borisov
- Department of Chemistry, R.E. Alekseev Nizhny Novgorod State Technical University, Minin St., 24, 603155 Nizhny Novgorod, Russia
| | - Maria M. Grishina
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
| | - Margarita N. Kurasova
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
| | - Anatoly A. Kirichuk
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
| | - Alexander S. Peregudov
- Institute of Organoelement Compounds of the Russian Academy of Sciences, Vavilov St., 28, 119991 Moscow, Russia
| | - Andreii S. Kritchenkov
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
| | - Alexander G. Tskhovrebov
- Research Institute of Chemistry, Peoples’ Friendship University of Russia, Miklukho-Maklaya St., 6, 117198 Moscow, Russia
- N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Ul. Kosygina, 4, 119991 Moscow, Russia
- Correspondence:
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9
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A. C. McDowel S, Arthurs VC. A comparative computational study of binary complexes of the structural isomers, propargylimine and acrylonitrile, with small molecules in the interstellar medium (ism). COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2022.113827] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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10
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Petrov PA, Filippova EA, Sukhikh TS, Novikov AS, Sokolov MN. Sterically Hindered Tellurium(IV) Catecholate as a Lewis Acid. Inorg Chem 2022; 61:9184-9194. [PMID: 35657161 DOI: 10.1021/acs.inorgchem.2c00751] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Sterically hindered tellurium catecholate Te(Cat36)2 (Cat36 = 3,6-di-tert-butyl-catecholate) was synthesized with the reaction of amorphous Te with 3,6-di-tert-butyl-o-benzoquinone. Adducts of Te(Cat36)2 with various O- and N-donors were isolated and characterized by means of single-crystal X-ray diffraction along with IR, UV-vis, and NMR (1H, 13C, and 125Te) spectroscopies. In the crystal structure of the adduct with 2,2'-bipyridine (bipy), the unprecedented μ-κ2N,N':κ2N,N'-bridging coordination mode of bipy was observed. Various intermolecular interactions Te...O, Te...N, and Te...C in adducts were analyzed using density functional theory calculations and quantum theory of atoms in molecules analysis. The estimated strength for appropriate short contacts varies from 0.9 to 5.3 kcal/mol, and they are attractive and purely non-covalent.
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Affiliation(s)
- Pavel A Petrov
- Nikolaev Institute of Inorganic Chemistry SB RAS, Prosp. Lavrentieva 3, Novosibirsk 630090, Russia
| | - Elizaveta A Filippova
- Nikolaev Institute of Inorganic Chemistry SB RAS, Prosp. Lavrentieva 3, Novosibirsk 630090, Russia.,Novosibirsk State University, Pirogova 2, Novosibirsk 630090, Russia
| | - Taisiya S Sukhikh
- Nikolaev Institute of Inorganic Chemistry SB RAS, Prosp. Lavrentieva 3, Novosibirsk 630090, Russia
| | - Alexander S Novikov
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab., 7/9, Saint Petersburg 199034, Russian Federation
| | - Maxim N Sokolov
- Nikolaev Institute of Inorganic Chemistry SB RAS, Prosp. Lavrentieva 3, Novosibirsk 630090, Russia
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11
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Suzuki−Miyaura coupling and O−arylation reactions catalysed by palladium(II) complexes of bulky ligands bearing naphthalene core, Schiff base functionality and biarylphosphine moiety. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.132099] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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12
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Non-Covalent Interactions in Organic, Organometallic, and Inorganic Supramolecular Systems Relevant for Medicine, Materials Science, and Catalysis. CRYSTALS 2022. [DOI: 10.3390/cryst12020246] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
The structure, fundamental properties, and reactivity of chemical systems at various hierarchical levels of organization of matter is the paradigm of chemistry. A qualitative and quantitative description of various intermolecular and intramolecular non-covalent interactions in chemical systems is the main tool for supramolecular design and the driving force of smart prediction of kinetic and thermodynamic parameters of chemical reactions. This perspective is dedicated to highlighting the recent progress of our research group in the investigation of various non-covalent contacts in organic, organometallic, and inorganic chemical systems relevant for medicine, materials science, and catalysis. This research is interdisciplinary in nature and lies at the intersection of computer modeling with such natural science disciplines as chemistry, physics, crystallography, biology, and medicine, as well as directly related to materials science and nanotechnology.
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13
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Kinzhalov MA, Luzyanin KV. Synthesis and Contemporary Applications of Platinum Group Metals Complexes with Acyclic Diaminocarbene Ligands (Review). RUSS J INORG CHEM+ 2022. [DOI: 10.1134/s0036023622010065] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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14
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Exploring Supramolecular Assembly Space of Cationic 1,2,4-Selenodiazoles: Effect of the Substituent at the Carbon Atom and Anions. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27031029. [PMID: 35164294 PMCID: PMC8839610 DOI: 10.3390/molecules27031029] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/27/2021] [Revised: 01/15/2022] [Accepted: 01/27/2022] [Indexed: 12/23/2022]
Abstract
Chalcogenodiazoles have been intensively studied in recent years in the context of their supramolecular chemistry. In contrast, the newly discovered cationic 1,2,4-selenodiazole supramolecular building blocks, which can be obtained via coupling between 2-pyridylselenyl halides and nitriles, are virtually unexplored. A significant advantage of the latter is their facile structural tunability via the variation of nitriles, which could allow a fine tuning of their self-assembly in the solid state. Here, we explore the influence of the substituent (which derives from the nitrile) and counterions on the supramolecular assembly of cationic 1,2,4-selenodiazoles via chalcogen bonding.
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15
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Sperlich E, Köckerling M. [Nb6Cl14(pyrazine)4], a Versatile Precursor for Ligand-Supported Hexanuclear Niobium Cluster Compounds: Synthesis, Characterization, Follow-Up Reactions, and Intermolecular Interactions. Inorg Chem 2022; 61:2409-2420. [DOI: 10.1021/acs.inorgchem.1c03109] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Eric Sperlich
- University of Potsdam Institute of Chemistry, Karl-Liebknecht-Strasse 24-25, D-14476 Potsdam, Germany
| | - Martin Köckerling
- University of Rostock, Institute of Chemistry, Solid-State Inorganic Chemistry Group, Albert-Einstein-Strasse 3a, D-18059 Rostock, Germany
- University of Rostock, Department Life, Light and Matter, D-18051 Rostock, Germany
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16
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Ren K, Zheng R, Xu P, Cheng D, Huo W, Yu J, Zhang Z, Sun Q. Electronic and Optical Properties of Atomic-Scale Heterostructure Based on MXene and MN (M = Al, Ga): A DFT Investigation. NANOMATERIALS (BASEL, SWITZERLAND) 2021; 11:2236. [PMID: 34578552 PMCID: PMC8467826 DOI: 10.3390/nano11092236] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Revised: 08/16/2021] [Accepted: 08/26/2021] [Indexed: 12/15/2022]
Abstract
After the discovery of graphene, a lot of research has been conducted on two-dimensional (2D) materials. In order to increase the performance of 2D materials and expand their applications, two different layered materials are usually combined by van der Waals (vdW) interactions to form a heterostructure. In this work, based on first-principles calculation, some charming properties of the heterostructure constructed by Hf2CO2, AlN and GaN are addressed. The results show that Hf2CO2/AlN and Hf2CO2/GaN vdW heterostructures can keep their original band structure shape and have strong thermal stability at 300 K. In addition, the Hf2CO2/MN heterostructure has I-type band alignment structure, which can be used as a promising light-emitting device material. The charge transfer between the Hf2CO2 and AlN (or GaN) monolayers is 0.1513 (or 0.0414) |e|. The potential of Hf2CO2/AlN and Hf2CO2/GaN vdW heterostructures decreases by 6.445 eV and 3.752 eV, respectively, across the interface. Furthermore, both Hf2CO2/AlN and Hf2CO2/GaN heterostructures have remarkable optical absorption capacity, which further shows the application prospect of the Hf2CO2/MN heterostructure. The study of this work provides theoretical guidance for the design of heterostructures for use as photocatalytic and photovoltaic devices.
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Affiliation(s)
- Kai Ren
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
| | - Ruxin Zheng
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
| | - Peng Xu
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
| | - Dong Cheng
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
| | - Wenyi Huo
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
| | - Jin Yu
- School of Materials Science and Engineering, Southeast University, Nanjing 211189, China;
| | - Zhuoran Zhang
- Center for More-Electric-Aircraft Power System, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, China;
| | - Qingyun Sun
- School of Mechanical and Electronic Engineering, Nanjing Forestry University, Nanjing 210037, China; (R.Z.); (P.X.); (D.C.); (W.H.)
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17
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Rudnitskaya OV, Tereshina TA, Dobrokhotova EV, Kultyshkina EK, Novikov AS, Tskhovrebov AG, Zubavichus YV, Khrustalev VN. Monoprotonated Dimethyl Sulfoxide, [HOSMe
2
]
+
: Synthesis, Crystal Structure, Spectroscopic and Theoretical Studies of [HOSMe
2
]
2
[OsCl
6
] ⋅ 2H
2
O. ChemistrySelect 2021. [DOI: 10.1002/slct.202100970] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Olga V. Rudnitskaya
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
| | - Tatiana A. Tereshina
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
| | - Ekaterina V. Dobrokhotova
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
| | - Ekaterina K. Kultyshkina
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
| | - Alexander S. Novikov
- Saint Petersburg State University Universitetskaya Nab. 7/9 199034 Saint Petersburg Russia
| | - Alexander G. Tskhovrebov
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
- Semenov Federal Research Center for Chemical Physics Russian Academy of Sciences Kosygina 4 119991 Moscow Russia
| | - Yan V. Zubavichus
- Synchrotron Radiation Facility SKIF Boreskov Institute of Catalysis Siberian Branch of the Russian Academy of Sciences Nikolskii pr. 1 630559 Koltsovo Russia
| | - Victor N. Khrustalev
- Department of Inorganic Chemistry Peoples' Friendship University of Russia (RUDN University) 6 Miklukho-Maklaya St Moscow 117198 Russian Federation
- Zelinsky Institute of Organic Chemistry RAS Leninsky Prosp. 47 119991 Moscow Russia
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18
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Shen S, Jing X, Zhang X, Li X, Zeng Y. The competition and cooperativity of hydrogen/halogen bond and π-hole bond involving the heteronuclear ethylene analogues. J Comput Chem 2021; 42:908-916. [PMID: 33729600 DOI: 10.1002/jcc.26513] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2020] [Revised: 02/07/2021] [Accepted: 03/01/2021] [Indexed: 11/08/2022]
Abstract
The noncovalent interactions involving heteronuclear ethylene analogues H2 CEH2 (E = Si, Ge and Sn) have been studied by the Møller-Plesset perturbation theory to investigate the competition and cooperativity between the hydrogen/halogen bond and π-hole bond. H2 CEH2 has a dual role of being a Lewis base and acid with the region of π-electron accumulation above the carbon atom and the region of π-electron depletion (π-hole) above the E atom to participate in the NCX···CE (X = H and Cl) hydrogen/halogen bond and CE···NCY (Y = H, Cl, Li and Na) π-hole bond, respectively. When HCN/ClCN interacts with H2 CEH2 by two sites, the strength of hydrogen bond/halogen bond is stronger than that of π-hole bond. The π-hole bond becomes obviously stronger when the metal substituent of YCN (Y = Li and Na) interacting with H2 CEH2 , showing the character of partial covalent, its strength is much greater than that of hydrogen/halogen bond. In the ternary complexes, both hydrogen/halogen bond and π-hole bond are simultaneously strengthened compared to those in the binary complexes, especially in the systems containing alkali metal.
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Affiliation(s)
- Shaojie Shen
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, China
| | - Xinyue Jing
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, China
| | - Xueying Zhang
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, China.,Hebei Key Laboratory of Inorganic Nano-Materials, Hebei Normal University, Shijiazhuang, China
| | - Xiaoyan Li
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, China.,Hebei Key Laboratory of Inorganic Nano-Materials, Hebei Normal University, Shijiazhuang, China
| | - Yanli Zeng
- College of Chemistry and Materials Science, Hebei Normal University, Shijiazhuang, China.,Hebei Key Laboratory of Inorganic Nano-Materials, Hebei Normal University, Shijiazhuang, China
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19
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Boyarskii VP, Mikherdov AS, Baikov SV, Savko PY, Suezov RV, Trifonov RE. Diaminocarbene Complexes of Palladium(II) Containing 2-Aminooxazole and 2-Aminothiazole Heterocyclic Ligands as Potential Antitumor Agents. Pharm Chem J 2021. [DOI: 10.1007/s11094-021-02393-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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20
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Novikov AS, Gushchin AL. Trinuclear molybdenum clusters with sulfide bridges as potential anionic receptors via chalcogen bonding. CrystEngComm 2021. [DOI: 10.1039/d1ce00514f] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Trinuclear Mo3S7 cluster complexes with sulfide bridges as potential anionic receptors due to chalcogen bonding.
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Affiliation(s)
| | - Artem L. Gushchin
- Nikolaev Institute of Inorganic Chemistry
- Siberian Branch of Russian Academy of Sciences
- Novosibirsk 630090
- Russian Federation
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21
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Veljković IS, Kretić DS, Veljković DŽ. Geometrical and energetic characteristics of Se⋯Se interactions in crystal structures of organoselenium molecules. CrystEngComm 2021. [DOI: 10.1039/d1ce00129a] [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
Combined crystallographic and quantum chemical study was performed to reveal the nature of selenium–selenium interactions in the crystal structures of organoselenium compounds.
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Affiliation(s)
- Ivana S. Veljković
- University of Belgrade – Institute of Chemistry
- Technology and Metallurgy – National Institute of the Republic of Serbia
- 11000 Belgrade
- Serbia
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22
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Mikherdov AS, Popov RA, Kinzhalov MA, Haukka M, Polukeev VA, Boyarskiy VP, Roodt A. Reaction mechanism of regioisomerization in binuclear (diaminocarbene)PdII complexes. Inorganica Chim Acta 2021. [DOI: 10.1016/j.ica.2020.120012] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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23
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Li W, Chen J, Xu Y, Lu T, Gou Q, Feng G. Unveiling the structural and energetic properties of thiazole-water complex by microwave spectroscopy and theoretical calculations. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 242:118720. [PMID: 32736219 DOI: 10.1016/j.saa.2020.118720] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2020] [Revised: 07/07/2020] [Accepted: 07/09/2020] [Indexed: 06/11/2023]
Abstract
The structure and non-covalent bonding features of the complex of thiazole and water were studied by using supersonic jet Fourier transform microwave spectroscopy and theoretical calculations. One isomer was observed which corresponds to the global minimum of the complex predicted theoretically. The rotational spectra of 9 additional isotopologues, including 5 mono-substituted heavy atoms of thiazole (34S, 13C and 15N), and 4 water isotopic species (H218O, DOH, HOD and D2O), were also measured and analyzed. The experimental spectroscopic parameters were used to determine the structural parameters of the observed isomer. Theoretical analyses based on quantum theory of atoms in molecules and natural bond orbital revealed that the two moieties are linked by a N···H-O hydrogen bond. The total interaction energy of the complex is calculated to be -25.1 kJmol-1 with electrostatics being the major term according to energy decomposition analysis.
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Affiliation(s)
- Wenqin Li
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China
| | - Junhua Chen
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China
| | - Yugao Xu
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China
| | - Tao Lu
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China
| | - Qian Gou
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China
| | - Gang Feng
- School of Chemistry and Chemical Engineering, Chongqing University, Daxuecheng South Rd. 55, 401331 Chongqing, China.
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24
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Exceptional bifurcated chalcogen bonding interaction between Ph2N2O2 and only one σ–hole on XCY (X=S, Se, Te and Y=O, S, Se, Te): a DFT study. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-02669-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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25
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Abstract
The problem of non-covalent interactions in coordination and organometallic compounds is a hot topic in modern chemistry, material science, crystal engineering and related fields of knowledge. Researchers in various fields of chemistry and other disciplines (physics, crystallography, computer science, etc.) are welcome to submit their works on this topic for our Special Issue “Non-Covalent Interactions in Coordination and Organometallic Chemistry”. The aim of this Special Issue is to highlight and overview modern trends and draw the attention of the scientific community to various types of non-covalent interactions in coordination and organometallic compounds. In this editorial, I would like to briefly highlight the main successes of our research group in the field of the fundamental study of non-covalent interactions in coordination and organometallic compounds over the past 5 years.
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Suzuki T, Sugawara K, Nojo W, Ishigaki Y, Ohkanda J. A Novel Condensed Heterocyclic Quinone with a Dibenzofuranobisthiadiazole Skeleton. HETEROCYCLES 2020. [DOI: 10.3987/com-19-s(f)7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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27
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Veljković IS, Veljković DŽ, Sarić GG, Stanković IM, Zarić SD. What is the preferred geometry of sulfur–disulfide interactions? CrystEngComm 2020. [DOI: 10.1039/d0ce00211a] [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
Combined crystallographic and quantum chemical studies showed that in most cases, in crystal structures, interactions between sulphur atoms and disulphide bonds are bifurcated.
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Affiliation(s)
- Ivana S. Veljković
- Institute of Chemistry, Technology and Metallurgy
- University of Belgrade
- 11000 Belgrade
- Serbia
| | | | | | - Ivana M. Stanković
- Institute of Chemistry, Technology and Metallurgy
- University of Belgrade
- 11000 Belgrade
- Serbia
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dos Santos SF, Oliveira AA, R. Santos G, Mahmoudi G, Afkhami FA, Santiago PS, Viana RB, da Silva AB, Santos RH. Crystal packing of a zinc(II)-azide complex with a N,N,S-tridentate thiosemicarbazone ligand: An experimental and computational study. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.07.045] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Mikherdov AS, Baikov SV, Proskurina IK, Shetnev AA, Kotov AD. Synthesis and Properties of C,N-Chelated Carbene Complexes of Palladium(II) with 2-Aminobenzo[d]thiazole Fragment. RUSS J GEN CHEM+ 2019. [DOI: 10.1134/s1070363219100128] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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31
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Popov RA, Novikov AS, Mikherdov AS. Synthesis of Mixed-Ligand Nitrileand Carbonyl–Isocyanide Complexes of Platinum(II) and Their Reaction with P-Toluenesulfonyl Hydrazide. RUSS J GEN CHEM+ 2018. [DOI: 10.1134/s1070363218110166] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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32
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Mikherdov AS, Orekhova YA, Boyarskii VP. Formation of Homo- and Heteronuclear Platinum(II) and Palladium(II) Carbene Complexes in the Reactions of Coordinated Isocyanides with Aminothiazaheterocycles. RUSS J GEN CHEM+ 2018. [DOI: 10.1134/s1070363218100158] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
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33
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Kinzhalov MA, Baykov SV, Novikov AS, Haukka M, Boyarskiy VP. Intermolecular hydrogen bonding H···Cl in crystal structure of palladium(II)-bis(diaminocarbene) complex. Z KRIST-CRYST MATER 2018. [DOI: 10.1515/zkri-2018-2100] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Abstract
The reaction of bis(isocyanide)palladium complex cis-[PdCl2(CNXyl)2] (Xyl=2,6-Me2C6H3) with excess of 4,5-dichlorobenzene-1,2-amine in a C2H4Cl2/MeOH mixture affords monocationic bis(diaminocarbene) complex cis-[PdClC{(NHXyl)=NHC6H2Cl2
NH2}{C(NHXyl)=NHC6H2Cl2NH2}]Cl (3) in moderate yield (42%). Complex 3 exists in the solid phase in the H-bonded dimeric associate of two single charged organometallic cations and two chloride anions according to X-ray diffraction data. The Hirshfeld surface analysis for the X-ray structure of 3 reveals that the crystal packing is determined primarily by intermolecular contacts H–Cl, H–H, and H–C. The intermolecular hydrogen bonds N–H···Cl and C–H···Cl in the H-bonded dimeric associate of 3 were studied by DFT calculations and topological analysis of the electron density distribution within the framework of QTAIM method, and estimated energies of these supramolecular contacts vary from 1.6 to 9.1 kcal/mol. Such non-covalent bonding means that complex 3 is an anionic receptor for the chloride anions.
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Affiliation(s)
- Mikhail A. Kinzhalov
- Saint Petersburg State University , Universitetskaya Nab. 7/9 , St. Petersburg 199034 , Russian Federation
| | - Sergey V. Baykov
- Saint Petersburg State University , Universitetskaya Nab. 7/9 , St. Petersburg 199034 , Russian Federation
| | - Alexander S. Novikov
- Saint Petersburg State University , Universitetskaya Nab. 7/9 , St. Petersburg 199034 , Russian Federation
| | - Matti Haukka
- Department of Chemistry , University of Jyväskylä , P.O. Box 35 , Jyväskylä FI-40014 , Finland
| | - Vadim P. Boyarskiy
- Saint Petersburg State University , Universitetskaya Nab. 7/9 , St. Petersburg 199034 , Russian Federation
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34
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Mikherdov AS, Tiuftiakov NY, Polukeev VA, Boyarskii VP. Coupling of Bis(xylylisocyanide) Palladium(II) Complex with 1,2,4-Thiadiazole-5-amines. RUSS J GEN CHEM+ 2018. [DOI: 10.1134/s1070363218040151] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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35
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Mikherdov AS, Kinzhalov MA, Novikov AS, Boyarskiy VP, Boyarskaya IA, Avdontceva MS, Kukushkin VY. Ligation-Enhanced π-Hole···π Interactions Involving Isocyanides: Effect of π-Hole···π Noncovalent Bonding on Conformational Stabilization of Acyclic Diaminocarbene Ligands. Inorg Chem 2018; 57:6722-6733. [PMID: 29792332 DOI: 10.1021/acs.inorgchem.8b01027] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The reaction of cis-[PdCl2(CNXyl)2] (Xyl = 2,6-Me2C6H3) with the aminoazoles [1 H-imidazol-2-amine (1), 4 H-1,2,4-triazol-3-amine (2), 1 H-tetrazol-5-amine (3), 1 H-benzimidazol-2-amine (4), 1-alkyl-1 H-benzimidazol-2-amines, where alkyl = Me (5), Et (6)] in a 2:1 ratio in the presence of a base in CHCl3 at RT proceeds regioselectively and leads to the binuclear diaminocarbene complexes [(ClPdCNXyl)2{μ-C(N-azolyl)N(Xyl)C═NXyl}] (7-12; 73-91%). Compounds 7-12 were characterized by C, H, N elemental analyses, high-resolution ESI+-MS, Fourier transform infrared spectroscopy, 1D (1H, 13C) and 2D (1H,1H-COSY, 1H,1H-NOESY, 1H,13C-HSQC, 1H,13C-HMBC) NMR spectroscopies, and X-ray diffraction (XRDn). Inspection of the XRDn data and results of the Hirshfeld surface analysis suggest the presence in all six structures of intramolecular π-holeisocyanide···πarene interactions between the electrophilic C atom of the isocyanide moiety and the neighboring arene ring. These interactions also result in distortion of the Pd-C≡N-Xyl fragment from the linearity. Results of density functional theory calculations [M06/MWB28 (Pd) and 6-31G* (other atoms) level of theory] for model structures of 7-9 followed by the topological analysis of the electron density distribution within the framework of Bader's theory (QTAIM method) reveal the presence of these weak interactions also in a CHCl3 solution, and their calculated strength is 1.9-2.2 kcal/mol. The natural bond orbital analysis of 7-9 revealed that π(C-C)Xyl → π*(C-N)isocyanide charge transfer (CT) takes place along with the intramolecular π-holeisocyanide···πarene interactions. The observed π(C-C)Xyl → π*(C-N)isocyanide CT is due to ligation of the isocyanide to the metal center, whereas in the cases of the uncomplexed p-CNC6H4NC and CNXyl species, the effects of CT are negligible. Available CCDC data were processed from the perspective of isocyanide-involving π-hole···π interactions, disclosed the role of metal coordination in the π-hole donor ability of isocyanides, and verified the π-holeisocyanide···πarene interaction effect on the stabilization of the in-conformation in metal-bound acyclic diaminocarbenes.
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Affiliation(s)
- Alexander S Mikherdov
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Mikhail A Kinzhalov
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Alexander S Novikov
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Vadim P Boyarskiy
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Irina A Boyarskaya
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Margarita S Avdontceva
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
| | - Vadim Yu Kukushkin
- Saint Petersburg State University , 7/9 Universitetskaya Nab ., Saint Petersburg , 199034 , Russian Federation
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Abstract
The concept of pseudo-bifurcated chalcogen bond has been proposed for the first time in this paper. It was found that the anticooperative effects between two chalcogen bonds of the pseudo-bifurcated chalcogen bond are not very large as compared to those of the true bifurcated noncovalent bond. According to the nature of pseudo-bifurcated chalcogen bond, we designed some strong pseudo-bifurcated chalcogen bond synthons. The binding energy of the strongest pseudo-bifurcated chalcogen bond attains about 27 kcal/mol. These strong pseudo-bifurcated chalcogen bond synthons have great potential as building blocks in crystal engineering.
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