1
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Ranjbar M, Nowroozi A, Nakhaei E. The first principle study of chalcogen bonds, pnicogen bond and their mutual effects in a set of complexes between the triazine with SHF and PH2F ligands. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2022.113867] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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2
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Channar PA, Saeed A, Larik FA, Flörke U, El-Seedi H, Rodríguez Pirani LS, Erben MF. An intramolecular 1,5-chalcogen bond on the conformational preference of carbonyl thiocarbamate species. NEW J CHEM 2020. [DOI: 10.1039/c9nj06417f] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Two closely related carbamothioates were prepared by the reaction of benzoyl isothiocyanates and methanol. The crystal structures show the occurrence of 1,5-O⋯O intramolecular short distance that determines the conformational preference.
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Affiliation(s)
| | - Aamer Saeed
- Department of Chemistry
- Quaid-I-Azam University
- Islamabad 45320
- Pakistan
| | - Fayaz Ali Larik
- Department of Chemistry
- Quaid-I-Azam University
- Islamabad 45320
- Pakistan
| | - Ulrich Flörke
- Department Chemie
- Fakultät für Naturwissenschaften
- Universität Paderborn
- D-33098 Paderborn
- Germany
| | - Hesham El-Seedi
- International Research Center for Food Nutrition and Safety
- Jiangsu University
- Zhenjiang 212013
- China
- Al-Rayan Research and Innovation Center
| | - Lucas S. Rodríguez Pirani
- CEQUINOR (UNLP, CONICET-CCT La Plata)
- Departamento de Química
- Facultad de Ciencias Exactas
- Universidad Nacional de La Plata
- La Plata
| | - Mauricio F. Erben
- CEQUINOR (UNLP, CONICET-CCT La Plata)
- Departamento de Química
- Facultad de Ciencias Exactas
- Universidad Nacional de La Plata
- La Plata
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3
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Yan N, Huo S, Li X, Zeng Y, Meng L. The chalcogen bond in F 2P(S)N⋅⋅⋅SX 2, F 2PNS⋅⋅⋅SX 2, F 2PSN⋅⋅⋅SX 2 (X = F, Cl, Br, OH, CH 3, NH 2) complexes. J Mol Model 2019; 25:19. [PMID: 30610397 DOI: 10.1007/s00894-018-3895-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2018] [Accepted: 12/04/2018] [Indexed: 11/25/2022]
Abstract
As a kind of intermolecular noncovalent interaction, chalcogen bonding plays a critical role in the fields of chemistry and biology. In this paper, S⋅⋅⋅S chalcogen bonds in three groups of complexes, F2P(S)N⋅⋅⋅SX2, F2PNS⋅⋅⋅SX2, and F2PSN⋅⋅⋅SX2 (X = F, Cl, Br, OH, CH3, NH2), were investigated at the MP2/aug-cc-pVTZ level of theory. The calculated results show that the formation of S⋅⋅⋅S chalcogen bond is in the manner of attraction between the positive molecular electrostatic potential (VS,max) of chalcogen bond donator and the negative VS,min of chalcogen bond acceptor. It is found that a good correlation exists between the S⋅⋅⋅S bond length and the interaction energy. The energy decomposition indicates the electrostatic energy and polarization energy are closely correlated with the total interaction energy. NBO analysis reveals that the charge transfer is rather closely correlated with the polarization, and the charge transfer has a similar behavior as the polarization in the formation of complex. Our results provide a new example for interpreting the noncovalent interaction based on the σ-hole concept. Graphical abstract The chalcogen bonds in the studied binary complexes are Coulombic in nature, and the charge transfer has a similar behavior as the polarization in the formation of the complex.
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Affiliation(s)
- Nan Yan
- College of Chemistry and Material Science, Hebei Normal University, Road East of 2nd Ring South, Shijiazhuang, 050024, China
| | - Suhong Huo
- College of Chemistry and Material Science, Hebei Normal University, Road East of 2nd Ring South, Shijiazhuang, 050024, China
| | - Xiaoyan Li
- College of Chemistry and Material Science, Hebei Normal University, Road East of 2nd Ring South, Shijiazhuang, 050024, China.,Key Laboratory of Inorganic Nano-materials of Hebei Province, Shijiazhuang, 050024, China
| | - Yanli Zeng
- College of Chemistry and Material Science, Hebei Normal University, Road East of 2nd Ring South, Shijiazhuang, 050024, China.,Key Laboratory of Inorganic Nano-materials of Hebei Province, Shijiazhuang, 050024, China
| | - Lingpeng Meng
- College of Chemistry and Material Science, Hebei Normal University, Road East of 2nd Ring South, Shijiazhuang, 050024, China. .,Key Laboratory of Inorganic Nano-materials of Hebei Province, Shijiazhuang, 050024, China.
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4
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Trujillo C, Rozas I, Elguero J, Alkorta I, Sánchez-Sanz G. Modulating intramolecular chalcogen bonds in aromatic (thio)(seleno)phene-based derivatives. Phys Chem Chem Phys 2019; 21:23645-23650. [DOI: 10.1039/c9cp03694f] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Intramolecular chalcogen interactions have been studied for four different derivatives of compounds within two different families, S or Se, to evaluate the effect of these IMChBs in the stability of the interacting and non-interacting systems.
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Affiliation(s)
- Cristina Trujillo
- School of Chemistry
- Trinity Biomedical Sciences Institute
- Trinity College Dublin 152-160 Pearse Street
- Dublin 2
- Ireland
| | - Isabel Rozas
- School of Chemistry
- Trinity Biomedical Sciences Institute
- Trinity College Dublin 152-160 Pearse Street
- Dublin 2
- Ireland
| | - José Elguero
- Instituto de Química Médica
- CSIC
- Juan de la Cierva
- 3
- E-28006 Madrid
| | - Ibon Alkorta
- Instituto de Química Médica
- CSIC
- Juan de la Cierva
- 3
- E-28006 Madrid
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5
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Yang W, Xia J, Zhou G, Jiang D, Li Q, Wang S, Zheng X, Li X, Shen Y, Li X. Selective non-enzymatic total bilirubin detection in serum using europium complexes with different β-diketone-derived ligands as luminescence probes. Anal Bioanal Chem 2018; 410:6459-6468. [PMID: 30043114 DOI: 10.1007/s00216-018-1243-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2018] [Revised: 06/11/2018] [Accepted: 07/04/2018] [Indexed: 11/29/2022]
Abstract
Three europium(III) complexes, Eu(ectfd)3 (Hectfd = 1-(9-ethyl-9H-carbazol-7-yl)-4,4,4-trifluorobutane-1,3-dione), Eu(tta)3 (Htta = 4,4,4-trifluoro-1-(thiophen-2-yl)-butane-1,3-dione), and Eu(dbt)3 (Hdbt = 2-(4',4',4'-trifluoro-1',3'-dioxobutyl)dibenzothiophene), were synthesized and employed to detect total bilirubin (BR) in blood-serum samples. UV-visible absorption and fluorescence (FL) spectroscopies were used to evaluate the selectivity of each europium (III) fluorescence probe to BR, which was shown to remarkably reduce the luminescence intensities of the europium(III) complexes at a wavelength of 612 nm. The luminescence intensity of each complex is linearly related to BR concentration. Eu(tta)3 was shown to be the more-appropriate fluorescence probe for the sensitive and reliable detection of total BR in blood serum samples than either Eu(ectfd)3 or Eu(dbt)3. This observation can be ascribed to special σ-hole bonding between Htta and BR. In addition, the optimal pH test conditions for the detection of BR in human serum by the Eu(tta)3 probe were determined. Sensitivity was shown to be dramatically affected by the pH of the medium. The experimental results reveal that pH 7.5 is optimal for this probe, which coincides with the pH of human serum. Furthermore, BR detection using the Eu(tta)3 luminescence probe is simple, practical, and relatively free of interference from coexisting substances; it has a minimum detection limit (DL) of 68 nM and is a potential candidate for the routine assessment of total BR in serum samples. Graphical Abstract ᅟ.
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Affiliation(s)
- Wei Yang
- Department of Chemistry, East China Normal University, Shanghai, 200062, China
| | - Jinfeng Xia
- Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Guohong Zhou
- Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Danyu Jiang
- Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Qiang Li
- Department of Chemistry, East China Normal University, Shanghai, 200062, China.
| | - Shiwei Wang
- Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Xiaohong Zheng
- Department of Chemistry, East China Normal University, Shanghai, 200062, China
| | - Xi Li
- Department of Chemistry, East China Normal University, Shanghai, 200062, China
| | - Yibo Shen
- Department of Chemistry, East China Normal University, Shanghai, 200062, China
| | - Xin Li
- Department of Chemistry, East China Normal University, Shanghai, 200062, China
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6
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Intra-/Intermolecular Bifurcated Chalcogen Bonding in Crystal Structure of Thiazole/Thiadiazole Derived Binuclear (Diaminocarbene)PdII Complexes. CRYSTALS 2018. [DOI: 10.3390/cryst8030112] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The coupling of cis-[PdCl2(CNXyl)2] (Xyl = 2,6-Me2C6H3) with 4-phenylthiazol-2-amine in molar ratio 2:3 at RT in CH2Cl2 leads to binuclear (diaminocarbene)PdII complex 3c. The complex was characterized by HRESI+-MS, 1H NMR spectroscopy, and its structure was elucidated by single-crystal XRD. Inspection of the XRD data for 3c and for three relevant earlier obtained thiazole/thiadiazole derived binuclear diaminocarbene complexes (3a EYOVIZ; 3b: EYOWAS; 3d: EYOVOF) suggests that the structures of all these species exhibit intra-/intermolecular bifurcated chalcogen bonding (BCB). The obtained data indicate the presence of intramolecular S•••Cl chalcogen bonds in all of the structures, whereas varying of substituent in the 4th and 5th positions of the thiazaheterocyclic fragment leads to changes of the intermolecular chalcogen bonding type, viz. S•••π in 3a,b, S•••S in 3c, and S•••O in 3d. At the same time, the change of heterocyclic system (from 1,3-thiazole to 1,3,4-thiadiazole) does not affect the pattern of non-covalent interactions. Presence of such intermolecular chalcogen bonding leads to the formation of one-dimensional (1D) polymeric chains (for 3a,b), dimeric associates (for 3c), or the fixation of an acetone molecule in the hollow between two diaminocarbene complexes (for 3d) in the solid state. The Hirshfeld surface analysis for the studied X-ray structures estimated the contributions of intermolecular chalcogen bonds in crystal packing of 3a–d: S•••π (3a: 2.4%; 3b: 2.4%), S•••S (3c: less 1%), S•••O (3d: less 1%). The additionally performed DFT calculations, followed by the topological analysis of the electron density distribution within the framework of Bader’s theory (AIM method), confirm the presence of intra-/intermolecular BCB S•••Cl/S•••S in dimer of 3c taken as a model system (solid state geometry). The AIM analysis demonstrates the presence of appropriate bond critical points for these interactions and defines their strength from 0.9 to 2.8 kcal/mol indicating their attractive nature.
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7
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Gleiter R, Haberhauer G, Werz DB, Rominger F, Bleiholder C. From Noncovalent Chalcogen-Chalcogen Interactions to Supramolecular Aggregates: Experiments and Calculations. Chem Rev 2018; 118:2010-2041. [PMID: 29420879 DOI: 10.1021/acs.chemrev.7b00449] [Citation(s) in RCA: 200] [Impact Index Per Article: 33.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This review considers noncovalent bonds between divalent chalcogen centers. In the first part we present X-ray data taken from the solid state structures of dimethyl- and diphenyl-dichalcogenides as well as oligoalkynes kept by alkyl-sulfur, -selenium, and -tellurium groups. Furthermore, we analyzed the solid state structures of medium sized (12-24 ring size) selenium coronands and medium to large rings with alkyne and alkene units between two chalcogen centers. The crystal structures of the cyclic structures revealed columnar stacks with close contacts between neighboring rings via noncovalent interactions between the chalcogen centers. To get larger space within the cavities, rings with diyne units between the chalcogen centers were used. These molecules showed channel-like structures in the solid state. The flexibility of the rings permits inclusion of guest molecules such as five-membered heterocycles and aromatic six-membered rings. In the second part we discuss the results of quantum chemical calculations. To treat properly the noncovalent bonding between chalcogens, we use diffuse augmented split valence basis sets in combination with electron correlation methods. Our model substances were 16 dimers consisting of two Me-X-Me (X = O, S, Se, Te) pairs and dimers of Me-X-Me/Me-X-CN (X = O, S, Se, Te) pairs. The calculations show the anticipated increase of the interaction energy from (Me-O-Me)2 (-2.15 kcal/mol) to (Me-O-Me/Me-Te-CN) (-6.59 kcal/mol). An analysis by the NBO method reveals that in the case of the chalcogen centers O and S the hydrogen bridges between the molecules dominate. However, in the case of Se and Te the major bonding between the pairs originates from dispersion forces between the chalcogen centers. It varies between -1.7 and -4.0 kcal/mol.
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Affiliation(s)
- Rolf Gleiter
- Organisch-Chemisches Institut, Universität Heidelberg , Im Neuenheimer Feld 270, D-69120 Heidelberg, Germany
| | - Gebhard Haberhauer
- Institut für Organische Chemie, Universität Duisburg-Essen , Universitätsstraße 7, D-45117 Essen, Germany
| | - Daniel B Werz
- Institut für Organische Chemie, Technische Universität Braunschweig , Hagenring 30, D-38106 Braunschweig, Germany
| | - Frank Rominger
- Organisch-Chemisches Institut, Universität Heidelberg , Im Neuenheimer Feld 270, D-69120 Heidelberg, Germany
| | - Christian Bleiholder
- Department of Chemistry and Biochemistry & Institute of Molecular Biophysics, Florida State University , Tallahassee, Florida 32306-4390, United States
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8
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Sánchez-Sanz G, Trujillo C. Improvement of Anion Transport Systems by Modulation of Chalcogen Interactions: The influence of solvent. J Phys Chem A 2018; 122:1369-1377. [DOI: 10.1021/acs.jpca.7b10920] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Goar Sánchez-Sanz
- Irish Centre of High-End Computing, Grand Canal
Quay, Dublin 2, Ireland
| | - Cristina Trujillo
- School
of Chemistry, Trinity Biomedical Sciences, Trinity College Dublin, 152−160 Pearse Street, Dublin 2, Ireland
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9
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Esrafili MD, Asadollahi S, Mousavian P. Exploring hydride-π interactions and their tuning by σ-hole bonds: an ab initio study. Mol Phys 2018. [DOI: 10.1080/00268976.2017.1369186] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Mehdi D. Esrafili
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
| | - Soheila Asadollahi
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
| | - Parisasadat Mousavian
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
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10
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Geboes Y, De Vleeschouwer F, De Proft F, Herrebout WA. Exploiting the σ-Hole Concept: An Infrared and Raman-Based Characterization of the S⋅⋅⋅O Chalcogen Bond between 2,2,4,4-Tetrafluoro-1,3-dithiethane and Dimethyl Ether. Chemistry 2017; 23:17384-17392. [DOI: 10.1002/chem.201704406] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Indexed: 12/18/2022]
Affiliation(s)
- Yannick Geboes
- Department of Chemistry; University of Antwerp, Groenenborgerlaan 171, 2020 Antwerp (Belgium), Eenheid Algemene Chemie (ALGC), Member of the QCMM VUB-UGent Alliance Research Group, Vrije Universiteit Brussel (VUB); Pleinlaan 2 1050 Brussels Belgium
| | - Freija De Vleeschouwer
- Eenheid Algemene Chemie (ALGC), Member of the QCMM VUB-UGent Alliance Research Group; Vrije Universiteit Brussel (VUB); Pleinlaan 2 1050 Brussels Belgium
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Member of the QCMM VUB-UGent Alliance Research Group; Vrije Universiteit Brussel (VUB); Pleinlaan 2 1050 Brussels Belgium
| | - Wouter A. Herrebout
- Department of Chemistry; University of Antwerp; Groenenborgerlaan 171 2020 Antwerp Belgium
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11
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Sánchez-Sanz G, Trujillo C, Alkorta I, Elguero J. Enhancing Intramolecular Chalcogen Interactions in 1-Hydroxy-8-YH-naphthalene Derivatives. J Phys Chem A 2017; 121:8995-9003. [DOI: 10.1021/acs.jpca.7b09678] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Goar Sánchez-Sanz
- Irish Centre of High-End Computing & School of Chemistry, University College Dublin, Belfield, Dublin 4, Ireland
| | - Cristina Trujillo
- School
of Chemistry, Trinity Biomedical Sciences, Trinity College Dublin, 152-160 Pearse Street, Dublin 2, Ireland
| | - Ibon Alkorta
- Instituto
de Química Médica, Consejo Superior de Investigaciones Científicas, Juan de la Cierva, 3, E-28006 Madrid, Spain
| | - José Elguero
- Instituto
de Química Médica, Consejo Superior de Investigaciones Científicas, Juan de la Cierva, 3, E-28006 Madrid, Spain
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12
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Wang Y, Zhang Y, Xu Z, Tong J, Teng W, Lu Y. Intramolecular C S⋯O S(C) chalcogen bonds: A theoretical study of the effects of substituents and intermolecular hydrogen bonds. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.06.021] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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13
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Pavan MS, Sarkar S, Row TNG. Exploring the rare S—H...S hydrogen bond using charge density analysis in isomers of mercaptobenzoic acid. ACTA CRYSTALLOGRAPHICA SECTION B-STRUCTURAL SCIENCE CRYSTAL ENGINEERING AND MATERIALS 2017; 73:626-633. [DOI: 10.1107/s2052520617008344] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 06/06/2017] [Indexed: 11/10/2022]
Abstract
Experimental and theoretical charge density analyses on isomers of mercaptobenzoic acid have been carried out to quantify the hydrogen bonding of the hitherto less explored thiols, to assess the strength of the interactions using the topological features of the electron density. The electron density study offers interesting insights into the nature of the S—H...S interaction. The interaction energy is comparable with that of a weak hydrogen bond. The strength and directionality of the S—H...S hydrogen bond is demonstrated to be mainly due to the conformation locking potential of the intramolecular S...O chalcogen bond in 2-mercaptobenzoic acid and is stronger than in 3-mercaptobenzoic acid, which lacks the intramolecular S...O bond. Thepara-substituted mercaptobenzoic acid depicts a type I S...S interaction.
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14
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Theoretical Study of Intramolecular Interactions in Peri-Substituted Naphthalenes: Chalcogen and Hydrogen Bonds. Molecules 2017; 22:molecules22020227. [PMID: 28157170 PMCID: PMC6155622 DOI: 10.3390/molecules22020227] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Accepted: 01/26/2017] [Indexed: 01/19/2023] Open
Abstract
A theoretical study of the peri interactions, both intramolecular hydrogen (HB) and chalcogen bonds (YB), in 1-hydroxy-8YH-naphthalene, 1,4-dihydroxy-5,8-di-YH-naphthalene, and 1,5-dihydroxy-4,8-di-YH-naphthalene, with Y = O, S, and Se was carried out. The systems with a OH:Y hydrogen bond are the most stable ones followed by those with a chalcogen O:Y interaction, those with a YH:O hydrogen bond (Y = S and Se) being the least stable ones. The electron density values at the hydrogen bond critical points indicate that they have partial covalent character. Natural Bond Orbital (NBO) analysis shows stabilization due to the charge transfer between lone pair orbitals towards empty Y–H that correlate with the interatomic distances. The electron density shift maps and non-covalent indexes in the different systems are consistent with the relative strength of the interactions. The structures found on the CSD were used to compare the experimental and calculated results.
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15
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Competition between chalcogen bond and halogen bond interactions in YOX4:NH3 (Y = S, Se; X = F, Cl, Br) complexes: An ab initio investigation. Struct Chem 2016. [DOI: 10.1007/s11224-016-0763-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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16
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Abstract
The halogen bond occurs when there is evidence of a net attractive interaction between an electrophilic region associated with a halogen atom in a molecular entity and a nucleophilic region in another, or the same, molecular entity. In this fairly extensive review, after a brief history of the interaction, we will provide the reader with a snapshot of where the research on the halogen bond is now, and, perhaps, where it is going. The specific advantages brought up by a design based on the use of the halogen bond will be demonstrated in quite different fields spanning from material sciences to biomolecular recognition and drug design.
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Affiliation(s)
- Gabriella Cavallo
- Laboratory
of Nanostructured Fluorinated Materials (NFMLab), Department of Chemistry,
Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Via L. Mancinelli 7, I-20131 Milano, Italy
| | - Pierangelo Metrangolo
- Laboratory
of Nanostructured Fluorinated Materials (NFMLab), Department of Chemistry,
Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Via L. Mancinelli 7, I-20131 Milano, Italy
- VTT-Technical
Research Centre of Finland, Biologinkuja 7, 02150 Espoo, Finland
| | - Roberto Milani
- VTT-Technical
Research Centre of Finland, Biologinkuja 7, 02150 Espoo, Finland
| | - Tullio Pilati
- Laboratory
of Nanostructured Fluorinated Materials (NFMLab), Department of Chemistry,
Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Via L. Mancinelli 7, I-20131 Milano, Italy
| | - Arri Priimagi
- Department
of Chemistry and Bioengineering, Tampere
University of Technology, Korkeakoulunkatu 8, FI-33101 Tampere, Finland
| | - Giuseppe Resnati
- Laboratory
of Nanostructured Fluorinated Materials (NFMLab), Department of Chemistry,
Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Via L. Mancinelli 7, I-20131 Milano, Italy
| | - Giancarlo Terraneo
- Laboratory
of Nanostructured Fluorinated Materials (NFMLab), Department of Chemistry,
Materials and Chemical Engineering “Giulio Natta”, Politecnico di Milano, Via L. Mancinelli 7, I-20131 Milano, Italy
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17
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Yuan P, Zhang TT, Cai AF, Cui CS, Liu HY, Bao XJ. Theoretical study on the mechanism of oxidative–extractive desulfurization in imidazolium-based ionic liquid. RSC Adv 2016. [DOI: 10.1039/c6ra16731d] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The oxidation of TH to SP by H2O2 with the assistance of IL experiences two steps via two transition states.
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Affiliation(s)
- P. Yuan
- State Key Laboratory of Heavy Oil Processing
- China University of Petroleum
- Beijing 102249
- China
| | - T. T. Zhang
- State Key Laboratory of Heavy Oil Processing
- China University of Petroleum
- Beijing 102249
- China
| | - A. F. Cai
- State Key Laboratory of Heavy Oil Processing
- China University of Petroleum
- Beijing 102249
- China
| | - C. S. Cui
- State Key Laboratory of Heavy Oil Processing
- China University of Petroleum
- Beijing 102249
- China
| | - H. Y. Liu
- State Key Laboratory of Heavy Oil Processing
- China University of Petroleum
- Beijing 102249
- China
| | - X. J. Bao
- The Key Laboratory of Catalysis
- China University of Petroleum
- Beijing 102249
- China
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18
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Dyachenko IV, Dyachenko VD. Synthesis of substituted thiazol-2-yl-acetamides. Molecular and crystal structure of N-(4-methoxyphenyl)-2-oxo-2-(4-phenylthiazol-2-yl)acetamide. RUSS J GEN CHEM+ 2015. [DOI: 10.1134/s1070363215050060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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19
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Chalcogen-bonded complexes. Selenium-bound adducts of NH3, H2O, PH3, and H2S with OCSe, SCSe, and CSe2. J Mol Model 2015; 21:35. [DOI: 10.1007/s00894-014-2562-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Accepted: 12/07/2014] [Indexed: 10/24/2022]
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Kravchenko AN, Gazieva GA, Vasilevskii SV, Nelyubina YV. Cascade synthesis of the first imidazo[4,5-e]-thiazolo[2,3-c][1,2,4]triazine derivative. MENDELEEV COMMUNICATIONS 2014. [DOI: 10.1016/j.mencom.2014.03.019] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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σ-Hole Interactions of Covalently-Bonded Nitrogen, Phosphorus and Arsenic: A Survey of Crystal Structures. CRYSTALS 2014. [DOI: 10.3390/cryst4010012] [Citation(s) in RCA: 139] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Politzer P, Murray JS. Halogen Bonding: An Interim Discussion. Chemphyschem 2013; 14:278-94. [DOI: 10.1002/cphc.201200799] [Citation(s) in RCA: 578] [Impact Index Per Article: 52.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2012] [Indexed: 11/10/2022]
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Politzer P, Murray JS, Clark T. Halogen bonding and other σ-hole interactions: a perspective. Phys Chem Chem Phys 2013; 15:11178-89. [DOI: 10.1039/c3cp00054k] [Citation(s) in RCA: 1221] [Impact Index Per Article: 111.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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Oliveira BGD. Structure, energy, vibrational spectrum, and Bader's analysis of π⋯H hydrogen bonds and H−δ⋯H+δdihydrogen bonds. Phys Chem Chem Phys 2013; 15:37-79. [DOI: 10.1039/c2cp41749a] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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Iwaoka M, Isozumi N. Hypervalent nonbonded interactions of a divalent sulfur atom. Implications in protein architecture and the functions. Molecules 2012; 17:7266-83. [PMID: 22695232 PMCID: PMC6269016 DOI: 10.3390/molecules17067266] [Citation(s) in RCA: 101] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2012] [Revised: 06/06/2012] [Accepted: 06/08/2012] [Indexed: 12/30/2022] Open
Abstract
In organic molecules a divalent sulfur atom sometimes adopts weak coordination to a proximate heteroatom (X). Such hypervalent nonbonded S···X interactions can control the molecular structure and chemical reactivity of organic molecules, as well as their assembly and packing in the solid state. In the last decade, similar hypervalent interactions have been demonstrated by statistical database analysis to be present in protein structures. In this review, weak interactions between a divalent sulfur atom and an oxygen or nitrogen atom in proteins are highlighted with several examples. S···O interactions in proteins showed obviously different structural features from those in organic molecules (i.e., π(o) → σ(s)* versus n(o) → σ(s)* directionality). The difference was ascribed to the HOMO of the amide group, which expands in the vertical direction (π(o)) rather than in the plane (n(o)). S···X interactions in four model proteins, phospholipase A₂ (PLA₂), ribonuclease A (RNase A), insulin, and lysozyme, have also been analyzed. The results suggested that S···X interactions would be important factors that control not only the three-dimensional structure of proteins but also their functions to some extent. Thus, S···X interactions will be useful tools for protein engineering and the ligand design.
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Affiliation(s)
- Michio Iwaoka
- Department of Chemistry, School of Science, Tokai University, Kitakaname, Hiratsuka-shi, Kanagawa 259-1292, Japan.
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Ponikvar-Svet M, Liebman JF. Interplay of thermochemistry and Structural Chemistry, the journal (volume 21, 2010) and the discipline. Struct Chem 2011. [DOI: 10.1007/s11224-011-9769-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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