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Shenderovich IG, Denisov GS. Solvent effects on acid-base complexes. What is more important: A macroscopic reaction field or solute-solvent interactions? J Chem Phys 2019; 150:204505. [PMID: 31153188 DOI: 10.1063/1.5096946] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Can the geometry of an acid-base complex in solution be reproduced in calculations using an implicit accounting for the solvent effect in the form of a macroscopic reaction field? The answer is, "Yes, it can." Is this field equal to the real electric field experienced by the complex in solution? The answer is, "No, it is not." How can the geometry be correct under wrong conditions? This question is answered using density functional theory modeling of geometric and NMR parameters of pyridine⋯HF⋯(HCF3)n adducts in the absence and presence of an external electric field. This adduct under field approach shows that the N⋯H distance is a function of the H-F distance whatever method is used to change the geometry of the latter. An explicit account for solute-solvent interactions is required to get a realistic value of the solvent reaction field. Besides that, this approach reveals how certain NMR parameters depend on the solvent reaction field, the solute-solvent interactions, and the geometry of the N⋯H-F hydrogen bond. For some of them, the obtained dependences are far from self-evident.
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Affiliation(s)
- Ilya G Shenderovich
- Institute of Organic Chemistry, University of Regensburg, Universitaetstrasse 31, 93053 Regensburg, Germany
| | - Gleb S Denisov
- Department of Physics, St.Petersburg State University, Saint Petersburg, Russia
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Dračínský M, Buchta M, Buděšínský M, Vacek-Chocholoušová J, Stará IG, Starý I, Malkina OL. Dihydrogen contacts observed by through-space indirect NMR coupling. Chem Sci 2018; 9:7437-7446. [PMID: 30319744 PMCID: PMC6180313 DOI: 10.1039/c8sc02859a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Accepted: 08/11/2018] [Indexed: 11/21/2022] Open
Abstract
"Through-space" indirect spin-spin couplings between hydrogen atoms formally separated by up to 18 covalent bonds have been detected by NMR experiments in model helical molecules. It is demonstrated that this coupling can provide crucial structural information on the molecular conformation in solution. The coupling pathways have been visualised and analysed by computational methods. The conformational dependence of the coupling is explained in terms of orbital interactions.
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Affiliation(s)
- Martin Dračínský
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Michal Buchta
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Miloš Buděšínský
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Jana Vacek-Chocholoušová
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Irena G Stará
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Ivo Starý
- Institute of Organic Chemistry and Biochemistry , Czech Academy of Sciences , Flemingovo nám. 2 , 166 10 Prague 6 , Czech Republic .
| | - Olga L Malkina
- Institute of Inorganic Chemistry , Slovak Academy of Sciences , Dúbravská cesta 9 , SK-84536 Bratislava , Slovakia .
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Shenderovich IG. Simplified calculation approaches designed to reproduce the geometry of hydrogen bonds in molecular complexes in aprotic solvents. J Chem Phys 2018; 148:124313. [PMID: 29604820 DOI: 10.1063/1.5011163] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
The impact of the environment onto the geometry of hydrogen bonds can be critically important for the properties of the questioned molecular system. The paper reports on the design of calculation approaches capable to simulate the effect of aprotic polar solvents on the geometric and NMR parameters of intermolecular hydrogen bonds. A hydrogen fluoride and pyridine complex has been used as the main model system because the experimental estimates of these parameters are available for it. Specifically, F-H, F⋯N, and H-N distances, the values of 15N NMR shift, and spin-spin coupling constants 1J(19F1H), 1hJ(1H15N), and 2hJ(19F15N) have been analyzed. Calculation approaches based on the gas-phase and the Polarizable Continuum Model (PCM) approximations and their combinations with geometric constraints and additional noncovalent interactions have been probed. The main result of this work is that the effect of an aprotic polar solvent on the geometry of a proton-donor⋯H⋯proton-acceptor complex cannot be reproduced under the PCM approximation if no correction for solvent-solute interactions is made. These interactions can be implicitly accounted for using a simple computational protocol.
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Affiliation(s)
- Ilya G Shenderovich
- Institute of Organic Chemistry, University of Regensburg, Universitaetstrasse 31, 93053 Regensburg, Germany
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Chalmers BA, Nejman PS, Llewellyn AV, Felaar AM, Griffiths BL, Portman EI, Gordon EJL, Fan KJH, Woollins JD, Bühl M, Malkina OL, Cordes DB, Slawin AMZ, Kilian P. A Study of Through-Space and Through-Bond J PP Coupling in a Rigid Nonsymmetrical Bis(phosphine) and Its Metal Complexes. Inorg Chem 2018. [PMID: 29517228 DOI: 10.1021/acs.inorgchem.8b00162] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A series of representative late d-block metal complexes bearing a rigid bis(phosphine) ligand, iPr2P-Ace-PPh2 (L, Ace = acenaphthene-5,6-diyl), was prepared and fully characterized by various techniques, including multinuclear NMR and single-crystal X-ray diffraction. The heteroleptic nature of the peri-substituted ligand L allows for the direct observation of the JPP couplings in the 31P{1H} NMR spectra. Magnitudes of JPP are correlated with the identity and geometry of the metal and the distortions of the ligand L. The forced overlap of the phosphine lone pairs due to the constraints imposed by the rigid acenaphthene skeleton in L results in a large 4 JPP of 180 Hz. Sequestration of the lone pairs, either via oxidation of the phosphine or via metal chelation, results in distinct changes in the magnitude of JPP. For tetrahedral d10 complexes ([LMCl2], M = Zn, Cd, Hg), the JPP is comparable to or larger than (193-309 Hz) that in free ligand L, although the P···P separation in these complexes is increased by ca. 0.4 Å (compare to free ligand L). The magnitude of JPP diminishes to 26-117 Hz in square planar d8 complexes ([LMX2], M = Ni, Pd, Pt; X = Cl, Br) and the octahedral Mo0 complex ([LMo(CO)4], 33 Hz). Coupling deformation density calculations indicate the through-space interaction dominates in free L, while in metal complexes the main coupling pathway is via the metal atom.
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Affiliation(s)
- Brian A Chalmers
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Phillip S Nejman
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Alice V Llewellyn
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Adrian M Felaar
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Ben L Griffiths
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Eden I Portman
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Emma-Jane L Gordon
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Kenny J H Fan
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - J Derek Woollins
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - M Bühl
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Olga L Malkina
- Institute of Inorganic Chemistry , Slovak Academy of Sciences , Dúbravská cesta 9 , 84 536 Bratislava , Slovakia
| | - David B Cordes
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Alexandra M Z Slawin
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
| | - Petr Kilian
- EaStCHEM School of Chemistry , University of St Andrews , St Andrews , Fife KY16 9ST , U.K
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Sánchez-Sanz G, Trujillo C, Alkorta I, Elguero J. Modulating intramolecular P⋯N pnictogen interactions. Phys Chem Chem Phys 2016; 18:9148-60. [DOI: 10.1039/c6cp00227g] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The strength of P⋯N intramolecular pnictogen interactions can be modulated, enhanced or diminished upon substitution of different electron withdrawing or donor groups.
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Affiliation(s)
| | - Cristina Trujillo
- School of Chemistry
- Trinity Biomedical Sciences Institute
- Trinity College Dublin
- Dublin 2
- Ireland
| | - Ibon Alkorta
- Instituto de Química Médica
- CSIC
- E-28006 Madrid
- Spain
| | - José Elguero
- Instituto de Química Médica
- CSIC
- E-28006 Madrid
- Spain
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Sánchez-Sanz G, Trujillo C, Alkorta I, Elguero J. Intramolecular pnicogen interactions in phosphorus and arsenic analogues of proton sponges. Phys Chem Chem Phys 2014; 16:15900-9. [DOI: 10.1039/c4cp01072h] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A computational study of the intramolecular pnicogen bond in 1,8-bis-substituted naphthalene derivatives (ZXH and ZX2 with Z = P, As and X = H, F, Cl, and Br), structurally related to proton sponges, has been carried out.
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Affiliation(s)
- Goar Sánchez-Sanz
- School of Physics & Complex and Adaptive Systems Laboratory
- University College Dublin
- Dublin 4, Ireland
| | - Cristina Trujillo
- Institute of Organic Chemistry and Biochemistry
- Gilead Sciences Research Center & IOCB
- Academy of Sciences of the Czech Republic
- 166 10 Praha 6, Czech Republic
| | - Ibon Alkorta
- Instituto de Química Médica (CSIC)
- 28006-Madrid, Spain
| | - José Elguero
- Instituto de Química Médica (CSIC)
- 28006-Madrid, Spain
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