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Mooibroek TJ. DFT and IsoStar Analyses to Assess the Utility of σ- and π-Hole Interactions for Crystal Engineering. Chemphyschem 2021; 22:141-153. [PMID: 33241585 PMCID: PMC7898519 DOI: 10.1002/cphc.202000927] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Revised: 11/25/2020] [Indexed: 11/25/2022]
Abstract
The interpretation of 36 charge neutral 'contact pairs' from the IsoStar database was supported by DFT calculations of model molecules 1-12, and bimolecular adducts thereof. The 'central groups' are σ-hole donors (H2 O and aromatic C-I), π-hole donors (R-C(O)Me, R-NO2 and R-C6 F5 ) and for comparison R-C6 H5 (R=any group or atom). The 'contact groups' are hydrogen bond donors X-H (X=N, O, S, or R2 C, or R3 C) and lone-pair containing fragments (R3 C-F, R-C≡N and R2 C=O). Nearly all the IsoStar distributions follow expectations based on the electrostatic potential of the 'central-' and 'contact group'. Interaction energies (ΔEBSSE ) are dominated by electrostatics (particularly between two polarized molecules) or dispersion (especially in case of large contact area). Orbital interactions never dominate, but could be significant (∼30 %) and of the n/π→σ*/π* kind. The largest degree of directionality in the IsoStar plots was typically observed for adducts more stable than ΔEBSSE ≈-4 kcal⋅mol-1 , which can be seen as a benchmark-value for the utility of an interaction in crystal engineering. This benchmark could be met with all the σ- and π-hole donors studied.
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Affiliation(s)
- Tiddo Jonathan Mooibroek
- van ‘t Hoff Institute for Molecular SciencesUniversiteit van Amsterdam, Science Park 9041098 XHAmsterdamThe Netherlands
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6
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Ishikawa R, Horii Y, Nakanishi R, Ueno S, Breedlove BK, Yamashita M, Kawata S. Field-Induced Single-Ion Magnetism Based on Spin-Phonon Relaxation in a Distorted Octahedral High-Spin Cobalt(II) Complex. Eur J Inorg Chem 2016. [DOI: 10.1002/ejic.201600481] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Ryuta Ishikawa
- Department of Chemistry; Fukuoka University; 8-19-1 Nanakuma 814-0180 Jonan-ku Fukuoka Japan
| | - Yoji Horii
- Department of Chemistry; Tohoku University; 6-3 Aza-Aoba 980-8578 Aramaki, Aoba-ku Sendai, Miyagi Japan
| | - Ryo Nakanishi
- Department of Chemistry; Tohoku University; 6-3 Aza-Aoba 980-8578 Aramaki, Aoba-ku Sendai, Miyagi Japan
- Core Research for Evolutional Science and Technology (CREST); Japan Science and Technology Agency (JST); 4-1-8 Kawaguchi 332-0012 Saitama Japan
| | - Shunya Ueno
- Department of Chemistry; Fukuoka University; 8-19-1 Nanakuma 814-0180 Jonan-ku Fukuoka Japan
| | - Brian K. Breedlove
- Department of Chemistry; Tohoku University; 6-3 Aza-Aoba 980-8578 Aramaki, Aoba-ku Sendai, Miyagi Japan
| | - Masahiro Yamashita
- Department of Chemistry; Tohoku University; 6-3 Aza-Aoba 980-8578 Aramaki, Aoba-ku Sendai, Miyagi Japan
- Core Research for Evolutional Science and Technology (CREST); Japan Science and Technology Agency (JST); 4-1-8 Kawaguchi 332-0012 Saitama Japan
| | - Satoshi Kawata
- Department of Chemistry; Fukuoka University; 8-19-1 Nanakuma 814-0180 Jonan-ku Fukuoka Japan
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7
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Sanyal R, Kundu P, Rychagova E, Zhigulin G, Ketkov S, Ghosh B, Chattopadhyay SK, Zangrando E, Das D. Catecholase activity of Mannich-based dinuclear CuII complexes with theoretical modeling: new insight into the solvent role in the catalytic cycle. NEW J CHEM 2016. [DOI: 10.1039/c6nj00105j] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Catecholase activity has been explored by combined experimental and theoretical approaches using di-copper(ii) complexes of Mannich-base ligands.
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Affiliation(s)
- Ria Sanyal
- Department of Chemistry
- University of Calcutta
- Kolkata 700009
- India
| | - Priyanka Kundu
- Department of Chemistry
- University of Calcutta
- Kolkata 700009
- India
| | - Elena Rychagova
- G. A. Razuvaev Institute of Organometallic Chemistry RAS
- 603950 Nizhny Novgorod
- Russian Federation
- N. I. Lobachevsky Nizhny Novgorod State University
- 603950 Nizhny Novgorod
| | - Grigory Zhigulin
- G. A. Razuvaev Institute of Organometallic Chemistry RAS
- 603950 Nizhny Novgorod
- Russian Federation
| | - Sergey Ketkov
- G. A. Razuvaev Institute of Organometallic Chemistry RAS
- 603950 Nizhny Novgorod
- Russian Federation
- N. I. Lobachevsky Nizhny Novgorod State University
- 603950 Nizhny Novgorod
| | - Bipinbihari Ghosh
- Department of Chemistry
- Indian Institute of Engineering Science and Technology
- Howrah 711103
- India
| | | | - Ennio Zangrando
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- 34127 Trieste
- Italy
| | - Debasis Das
- Department of Chemistry
- University of Calcutta
- Kolkata 700009
- India
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11
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Allen SE, Walvoord RR, Padilla-Salinas R, Kozlowski MC. Aerobic copper-catalyzed organic reactions. Chem Rev 2013; 113:6234-458. [PMID: 23786461 PMCID: PMC3818381 DOI: 10.1021/cr300527g] [Citation(s) in RCA: 1228] [Impact Index Per Article: 111.6] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Scott E. Allen
- Department of Chemistry, Roy and Diana Vagelos Laboratories, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Ryan R. Walvoord
- Department of Chemistry, Roy and Diana Vagelos Laboratories, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Rosaura Padilla-Salinas
- Department of Chemistry, Roy and Diana Vagelos Laboratories, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Marisa C. Kozlowski
- Department of Chemistry, Roy and Diana Vagelos Laboratories, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
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15
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Kojima T, Hirasa N, Noguchi D, Ishizuka T, Miyazaki S, Shiota Y, Yoshizawa K, Fukuzumi S. Synthesis and Characterization of Ruthenium(II)−Pyridylamine Complexes with Catechol Pendants as Metal Binding Sites. Inorg Chem 2010; 49:3737-45. [DOI: 10.1021/ic902070q] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Takahiko Kojima
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571
| | - Norihisa Hirasa
- Department of Material and Life Science, Graduate School of Engineering, Osaka University and SORST (JST), 2-1 Yamada-oka, Suita, Osaka 565-0871
| | | | - Tomoya Ishizuka
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571
| | - Soushi Miyazaki
- Department of Material and Life Science, Graduate School of Engineering, Osaka University and SORST (JST), 2-1 Yamada-oka, Suita, Osaka 565-0871
| | | | | | - Shunichi Fukuzumi
- Department of Material and Life Science, Graduate School of Engineering, Osaka University and SORST (JST), 2-1 Yamada-oka, Suita, Osaka 565-0871
- Department of Bioinspired Science, Ewha Womans University, Seoul, 120-750, Korea
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17
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Chatterjee PB, Bhattacharya K, Kundu N, Choi KY, Clérac R, Chaudhury M. Vanadium-Induced Nucleophilic IPSO Substitutions in a Coordinated Tetrachlorosemiquinone Ring: Formation of the Chloranilate Anion as a Bridging Ligand. Inorg Chem 2009; 48:804-6. [DOI: 10.1021/ic801985g] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Pabitra Baran Chatterjee
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
| | - Kisholoy Bhattacharya
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
| | - Nabanita Kundu
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
| | - Ki-Young Choi
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
| | - Rodolphe Clérac
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
| | - Muktimoy Chaudhury
- Department of Inorganic Chemistry, Indian Association for the Cultivation of Science, Kolkata 700 032, India, Department of Chemistry Education, Kongju National University, Kongju 314-701, South Korea, CNRS, UPR 8641, Centre de Recherche Paul Pascal (CRPP), Equipe “Matériaux Moléculaires Magnétiques”, 115 avenue du Dr. Albert Schweitzer, Pessac, F-33600, France, and Université de Bordeaux, UPR 8641, Pessac, F-33600, France
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18
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Sreenivasulu B. Diphenoxo-Bridged Copper(II) Complexes of Reduced Schiff Base Ligands as Functional Models for Catechol Oxidase. Aust J Chem 2009. [DOI: 10.1071/ch09263] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The design and development of synthetic analogues for the active dicopper(ii) sites of catechol oxidase, with the help of binucleating ligands in particular, is an attractive strategy to generate relevant information on structure–function relationships. Dicopper(ii) complexes of different yet closely related series of reduced Schiff base ligands (N-(2-hydroxybenzyl)-amino acids; N-(2-hydroxybenzyl)-amino amides, N-(2-hydroxybenzyl)-aminomethane or ethanesulfonic acids, and N-(2-hydroxy-5-substituted-benzyl)-cyclopentane or hexanecarboxylic acids) derived from various substituted salicylaldehydes and natural or unnatural amino acids or amides explored as functional models for the Type 3 copper enzyme catecholase oxidase are reviewed in the present paper. The catalytic activity of different series of dicopper(ii) complexes to oxidize the model substrate 3,5-di-tert-butylcatechol to the corresponding 3,5-di-tert-butylquinone is discussed with respect to the various ligand properties such as the length and chelating ability of the amino acid side-arm of the ligands, conformation of the ligand, nature of the donor groups on the amino acid backbone and role of different para-substituents. This article provides a short review summarizing the trend observed in the catecholase activity of different series of dicopper(ii) complexes investigated in our laboratory.
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