1
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Batista PR, Ducati LC, Autschbach J. Dynamic and relativistic effects on Pt-Pt indirect spin-spin coupling in aqueous solution studied by ab initio molecular dynamics and two- vs four-component density functional NMR calculations. J Chem Phys 2024; 160:114307. [PMID: 38497474 DOI: 10.1063/5.0196853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Accepted: 02/22/2024] [Indexed: 03/19/2024] Open
Abstract
Treating 195Pt nuclear magnetic resonance parameters in solution remains a considerable challenge from a quantum chemistry point of view, requiring a high level of theory that simultaneously takes into account the relativistic effects, the dynamic treatment of the solvent-solute system, and the dynamic electron correlation. A combination of Car-Parrinello molecular dynamics (CPMD) and relativistic calculations based on two-component zeroth order regular approximation spin-orbit Kohn-Sham (2c-ZKS) and four-component Dirac-Kohn-Sham (4c-DKS) Hamiltonians is performed to address the solvent effect (water) on the conformational changes and JPtPt1 coupling. A series of bridged PtIII dinuclear complexes [L1-Pt2(NH3)4(Am)2-L2]n+ (Am = α-pyrrolidonate and pivalamidate; L = H2O, Cl-, and Br-) are studied. The computed Pt-Pt coupling is strongly dependent on the conformational dynamics of the complexes, which, in turn, is correlated with the trans influence among axial ligands and with the angle N-C-O from the bridging ligands. The J-coupling is decomposed in terms of dynamic contributions. The decomposition reveals that the vibrational and explicit solvation contributions reduce JPtPt1 of diaquo complexes (L1 = L2 = H2O) in comparison to the static gas-phase magnitude, whereas the implicit solvation and bulk contributions correspond to an increase in JPtPt1 in dihalo (L1 = L2 = X-) and aquahalo (L1 = H2O; L2 = X-) complexes. Relativistic treatment combined with CPMD shows that the 2c-ZKS Hamiltonian performs as well as 4c-DKS for the JPtPt1 coupling.
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Affiliation(s)
- Patrick R Batista
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Lucas C Ducati
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, USA
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2
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Ondar EE, Polynski MV, Ananikov VP. Predicting 195 Pt NMR Chemical Shifts in Water-Soluble Inorganic/Organometallic Complexes with a Fast and Simple Protocol Combining Semiempirical Modeling and Machine Learning. Chemphyschem 2023:e202200940. [PMID: 36806426 DOI: 10.1002/cphc.202200940] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Revised: 02/20/2023] [Accepted: 02/20/2023] [Indexed: 02/23/2023]
Abstract
Water-soluble Pt complexes are the key components in medicinal chemistry and catalysis. The well-known cisplatin family of anticancer drugs and industrial hydrosylilation catalysts are two leading examples. On the molecular level, the activity mechanisms of such complexes mostly involve changes in the Pt coordination sphere. Using 195 Pt NMR spectroscopy for operando monitoring would be a valuable tool for uncovering the activity mechanisms; however, reliable approaches for the rapid correlation of Pt complex structure with 195 Pt chemical shifts are very challenging and not available for everyday research practice. While NMR shielding is a response property, molecular 3D structure determines NMR spectra, as widely known, which allows us to build up 3D structure to 195 Pt chemical shift correlations. Accordingly, we present a new workflow for the determination of lowest-energy configurational/conformational isomers based on the GFN2-xTB semiempirical method and prediction of corresponding chemical shifts with a Machine Learning (ML) model tuned for Pt complexes. The workflow was designed for the prediction of 195 Pt chemical shifts of water-soluble Pt(II) and Pt(IV) anionic, neutral, and cationic complexes with halide, NO2 - , (di)amino, and (di)carboxylate ligands with chemical shift values ranging from -6293 to 7090 ppm. The model offered an accuracy (normalized root-mean-square deviation/RMSD) of 1.08 %/145.02 ppm on the held-out test set.
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Affiliation(s)
- Evgeniia E Ondar
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow, 119991, Russia
| | - Mikhail V Polynski
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow, 119991, Russia.,Scientific Technological Center of Organic and Pharmaceutical Chemistry, National Academy of Sciences, 26 Azatutyan Ave, 0014, Yerevan, Armenia
| | - Valentine P Ananikov
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect 47, Moscow, 119991, Russia
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3
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Sojka M, Chyba J, Paul SS, Wawrocka K, Hönigová K, Cuyacot BJR, Castro AC, Vaculovič T, Marek J, Repisky M, Masařík M, Novotný J, Marek R. Supramolecular Coronation of Platinum(II) Complexes by Macrocycles: Structure, Relativistic DFT Calculations, and Biological Effects. Inorg Chem 2021; 60:17911-17925. [PMID: 34738800 DOI: 10.1021/acs.inorgchem.1c02467] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Platinum-based anticancer drugs are actively developed utilizing lipophilic ligands or drug carriers for the efficient penetration of biomembranes, reduction of side effects, and tumor targeting. We report the development of a supramolecular host-guest system built on cationic platinum(II) compounds bearing ligands anchored in the cavity of the macrocyclic host. The host-guest binding and hydrolysis process on the platinum core were investigated in detail by using NMR, MS, X-ray diffraction, and relativistic DFT calculations. The encapsulation process in cucurbit[7]uril unequivocally promotes the stability of hydrolyzed dicationic cis-[PtII(NH3)2(H2O)(NH2-R)]2+ compared to its trans isomer. Biological screening on the ovarian cancer lines A2780 and A2780/CP shows time-dependent toxicity. Notably, the reported complex and its β-cyclodextrin (β-CD) assembly achieve the same cellular uptake as cisplatin and cisplatin@β-CD, respectively, while maintaining a significantly lower toxicity profile.
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Affiliation(s)
- Martin Sojka
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Jan Chyba
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Shib Shankar Paul
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Karolina Wawrocka
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Kateřina Hönigová
- Department of Pathological Physiology, Faculty of Medicine, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Ben Joseph R Cuyacot
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Abril C Castro
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, 0315 Oslo, Norway
| | - Tomáš Vaculovič
- Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Jaromír Marek
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Michal Repisky
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT - The Arctic University of Norway, 9037 Tromsø, Norway
| | - Michal Masařík
- Department of Pathological Physiology, Faculty of Medicine, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Physiology, Faculty of Medicine, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Jan Novotný
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Radek Marek
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia.,Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
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4
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Batista PR, Ducati LC, Autschbach J. Solvent effect on the 195Pt NMR properties in pyridonate-bridged Pt III dinuclear complex derivatives investigated by ab initio molecular dynamics and localized orbital analysis. Phys Chem Chem Phys 2021; 23:12864-12880. [PMID: 34075921 DOI: 10.1039/d0cp05849a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An ab initio molecular dynamics investigation of the solvent effect (water) on the structural parameters, 195Pt NMR spin-spin coupling constants (SSCCs) and chemical shifts of a series of pyridonate-bridged PtIII dinuclear complexes is performed using Kohn-Sham (KS) Car-Parrinello molecular dynamics (CPMD) and relativistic hybrid KS NMR calculations. The indirect solvent effect (via structural changes) has a dramatic effect on the 1JPtPt SSCCs. The complexes exhibit a strong trans influence in solution, where the Pt-Pt bond lengthens with increasing axial ligand σ-donor strength. In the diaqua complex, where the solvent effect is more pronounced, the SSCCs averaged for CPMD configurations with explicit plus implicit solvation agree much better with the experimental data, while the calculations for static geometry and CPMD unsolvated configurations show large deviations with respect to experiment. The combination of CPMD with hybrid KS NMR calculations provides a much more realistic computational model that reproduces the large magnitudes of 1JPtPt and 195Pt chemical shifts. An analysis of 1JPtPt in terms of localized and canonical orbitals shows that the SSCCs are driven by changes in the s-character of the natural atomic orbitals of Pt atoms, which affect the 'Fermi contact' mechanism.
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Affiliation(s)
- Patrick R Batista
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000, São Paulo, SP, Brazil.
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5
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De Souza LA, Almeida ER, Cunha e Silva JH, Paschoal DFS, Belchior JC, Dos Santos HF, De Almeida WB. 1H and 195Pt NMR prediction for inclusion compounds formed by cisplatin and oxidized carbon nanostructures. RSC Adv 2021; 11:599-611. [PMID: 35423010 PMCID: PMC8691003 DOI: 10.1039/d0ra06044e] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Accepted: 11/29/2020] [Indexed: 01/07/2023] Open
Abstract
Prediction of NMR chemical shifts can assist experimentalists in the characterization of drug delivery systems based on carbon nanocomposites. Chemical shifts are strongly correlated to the nucleus position and its chemical neighborhood. Therefore, to predict structures and NMR properties of complex chemical models, choosing a more consistent theoretical level capable of providing more realistic results and moderate computational demand is a major challenge. In this work, we predicted the NMR spectra of inclusion compounds formed by cisplatin (cDDP) and an oxidized carbon nanotube (CNTox) and nanocone (CNCox) considered by specialists as potential drug delivery systems. The 195Pt NMR chemical shifts calculated at the DFT level with the new relativistic NMR-DKH basis set were −2314 ppm and −2192 ppm for cDDP@CNTox and cDDP@CNCox complexes, respectively, which are both high-field shifted relative to the free cDDP (−2110 ppm). 1H NMR chemical shifts are also sensitive to the inclusion process. The H (NH3) signals are found on average at +4.3 (cDDP), −5.1 (cDDP@CNTox) and +6.6 ppm (cDDP@CNCox). Interestingly, despite the similar inclusion modes in CNTox and CNCox cavities, the 1H NMR shifts were in opposite directions. A possible reason might be the higher stability of cDDP@CNTox (ΔEF = −19.9 kcal mol−1) than that of cDDP@CNCox (ΔEF = −5.7 kcal mol−1), which suggests a short guest–host contact in the former and consequently, a more efficient shielding of hydrogen atoms due to the electron-rich carbon structure. These results may be helpful as comparison data in the NMR spectra assignment in solution and the inclusion compounds' structural elucidation. 195Pt NMR chemical shifts of the cisplatin molecule in the inclusion complex formed by oxidized carbon nanotubes.![]()
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Affiliation(s)
- Leonardo A. De Souza
- Departamento de Química
- ICEx, Universidade Federal de Minas Gerais
- Belo Horizonte
- Brazil
| | - Eduardo R. Almeida
- Núcleo de Estudos em Química Computacional (NEQC)
- Departamento de Química
- ICE, Universidade Federal de Juiz de Fora
- Juiz de Fora
- Brazil
| | - Joyce H. Cunha e Silva
- Núcleo de Química Teórica e Computacional de Macaé (NQTCM), Polo Ajuda
- Universidade Federal do Rio de Janeiro
- Macaé
- Brazil
| | - Diego F. S. Paschoal
- Núcleo de Química Teórica e Computacional de Macaé (NQTCM), Polo Ajuda
- Universidade Federal do Rio de Janeiro
- Macaé
- Brazil
| | - Jadson C. Belchior
- Departamento de Química
- ICEx, Universidade Federal de Minas Gerais
- Belo Horizonte
- Brazil
| | - Hélio F. Dos Santos
- Núcleo de Estudos em Química Computacional (NEQC)
- Departamento de Química
- ICE, Universidade Federal de Juiz de Fora
- Juiz de Fora
- Brazil
| | - Wagner B. De Almeida
- Laboratório de Química Computacional e Modelagem Molecular (LQC-MM)
- Departamento de Química Inorgânica
- Instituto de Química
- Universidade Federal Fluminense
- Niterói
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6
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Castro AC, Balcells D, Repisky M, Helgaker T, Cascella M. First-Principles Calculation of 1H NMR Chemical Shifts of Complex Metal Polyhydrides: The Essential Inclusion of Relativity and Dynamics. Inorg Chem 2020; 59:17509-17518. [PMID: 33226791 PMCID: PMC7735704 DOI: 10.1021/acs.inorgchem.0c02753] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Indexed: 12/03/2022]
Abstract
1H NMR spectroscopy has become an important technique for the characterization of transition-metal hydride complexes, whose metal-bound hydrides are often difficult to locate by X-ray diffraction. In this regard, the accurate prediction of 1H NMR chemical shifts provides a useful, but challenging, strategy to help in the interpretation of the experimental spectra. In this work, we establish a density-functional-theory protocol that includes relativistic, solvent, and dynamic effects at a high level of theory, allowing us to report an accurate and reliable interpretation of 1H NMR hydride chemical shifts of iridium polyhydride complexes. In particular, we have studied in detail the hydride chemical shifts of the [Ir6(IMe)8(CO)2H14]2+ complex in order to validate previous assignments. The computed 1H NMR chemical shifts are strongly dependent on the relativistic treatment, the choice of the DFT exchange-correlation functional, and the conformational dynamics. By combining a fully relativistic four-component electronic-structure treatment with ab initio molecular dynamics, we were able to reliably model both the terminal and bridging hydride chemical shifts and to show that two NMR hydride signals were inversely assigned in the experiment.
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Affiliation(s)
- Abril C. Castro
- Hylleraas Centre
for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, 0315 Oslo, Norway
| | - David Balcells
- Hylleraas Centre
for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, 0315 Oslo, Norway
| | - Michal Repisky
- Hylleraas Centre for Quantum Molecular
Sciences, Department of Chemistry, UiT-The Arctic University
of Norway, 9037 Tromsø, Norway
| | - Trygve Helgaker
- Hylleraas Centre
for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, 0315 Oslo, Norway
| | - Michele Cascella
- Hylleraas Centre
for Quantum Molecular Sciences, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, 0315 Oslo, Norway
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7
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Benedetti M, De Castro F, Papadia P, Antonucci D, Fanizzi FP. 195
Pt and
15
N NMR Data in Square Planar Platinum(II) Complexes of the Type [Pt(NH
3
)
a
X
b
]
n
(X
b
= Combination of Halides): “
NMR Effective Molecular Radius
” of Coordinated Ammonia. Eur J Inorg Chem 2020. [DOI: 10.1002/ejic.202000474] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Michele Benedetti
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), Università del Salento Via Monteroni 73100 Lecce Italy
| | - Federica De Castro
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), Università del Salento Via Monteroni 73100 Lecce Italy
| | - Paride Papadia
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), Università del Salento Via Monteroni 73100 Lecce Italy
| | - Daniela Antonucci
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), Università del Salento Via Monteroni 73100 Lecce Italy
| | - Francesco P. Fanizzi
- Department of Biological and Environmental Sciences and Technologies (DiSTeBA), Università del Salento Via Monteroni 73100 Lecce Italy
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8
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Hirakawa T, Bowler DR, Miyazaki T, Morikawa Y, Truflandier LA. Blue moon ensemble simulation of aquation free energy profiles applied to mono and bifunctional platinum anticancer drugs. J Comput Chem 2020; 41:1973-1984. [DOI: 10.1002/jcc.26367] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Revised: 05/21/2020] [Accepted: 06/01/2020] [Indexed: 12/31/2022]
Affiliation(s)
- Teruo Hirakawa
- Department of Precision EngineeringGraduate School of Engineering, Osaka University Suita Osaka Japan
- Institut des Sciences Moléculaires (ISM), Université Bordeaux Talence Cedex France
| | - David R. Bowler
- Department of Physics & AstronomyUniversity College London (UCL) London United Kingdom
- London Centre for Nanotechnology, UCL London United Kingdom
- International Centre for Materials Nanoarchitechtonics (WPI‐MANA), National Institute for Materials Science (NIMS) Tsukuba Ibaraki Japan
| | - Tsuyoshi Miyazaki
- International Centre for Materials Nanoarchitechtonics (WPI‐MANA), National Institute for Materials Science (NIMS) Tsukuba Ibaraki Japan
| | - Yoshitada Morikawa
- Department of Precision EngineeringGraduate School of Engineering, Osaka University Suita Osaka Japan
- Elements Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University Kyoto Japan
- Research Center for Ultra‐Precision Science and TechnologyGraduate School of Engineering, Osaka University Suita Osaka Japan
| | - Lionel A. Truflandier
- Department of Precision EngineeringGraduate School of Engineering, Osaka University Suita Osaka Japan
- Institut des Sciences Moléculaires (ISM), Université Bordeaux Talence Cedex France
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9
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Vı́cha J, Novotný J, Komorovsky S, Straka M, Kaupp M, Marek R. Relativistic Heavy-Neighbor-Atom Effects on NMR Shifts: Concepts and Trends Across the Periodic Table. Chem Rev 2020; 120:7065-7103. [DOI: 10.1021/acs.chemrev.9b00785] [Citation(s) in RCA: 64] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Jan Vı́cha
- Centre of Polymer Systems, Tomas Bata University in Zlı́n, tř. Tomáše Bati 5678, CZ-76001 Zlı́n, Czechia
| | - Jan Novotný
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
| | - Stanislav Komorovsky
- Institute of Inorganic Chemistry, Slovak Academy of Sciences, Dúbravská cesta 9, SK-84536 Bratislava, Slovakia
| | - Michal Straka
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, CZ-16610 Prague, Czechia
| | - Martin Kaupp
- Institute of Chemistry, Technische Universität Berlin, Strasse des 17. Juni 135, D-10623 Berlin, Germany
| | - Radek Marek
- CEITEC - Central European Institute of Technology, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
- Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 5, CZ-62500 Brno, Czechia
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10
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Martinez-Baez E, Feng R, Pearce CI, Schenter GK, Clark AE. Al27 NMR chemical shift of Al(OH) 4 - calculated from first principles: Assessment of error cancellation in chemically distinct reference and target systems. J Chem Phys 2020; 152:134303. [PMID: 32268758 DOI: 10.1063/1.5144294] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Predicting accurate nuclear magnetic resonance chemical shieldings relies upon cancellation of different types of errors between the theoretically calculated shielding constant of the analyte of interest and the reference. Often, the intrinsic error in computed shieldings due to basis sets, approximations in the Hamiltonian, description of the wave function, and dynamic effects is nearly identical between the analyte and reference, yet if the electronic structure or sensitivity to local environment differs dramatically, this cannot be taken for granted. Detailed prior work has examined the octahedral trivalent cation Al(H2O)6 3+, accounting for ab initio intrinsic errors. However, the use of this species as a reference for the chemically distinct tetrahedral anion Al(OH)4 - requires an understanding of how these errors cancel in order to define the limits of accurately predicting Al27 chemical shielding in Al(OH)4 -. In this work, we estimate the absolute shielding of the Al27 nucleus in Al(OH)4 - at the coupled cluster level (515.1 ± 5.3 ppm). Shielding sensitivity to the choice of method approximation and atomic basis sets used has been evaluated. Solvent and thermal effects are assessed through ensemble averaging techniques using ab initio molecular dynamics. The contribution of each type of intrinsic error is assessed for the Al(H2O)6 3+ and Al(OH)4 - ions, revealing significant differences that fundamentally hamper the ability to accurately calculate the Al27 chemical shift of Al(OH)4 - from first principles.
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Affiliation(s)
- Ernesto Martinez-Baez
- Department of Chemistry, Washington State University, Pullman, Washington 99164, USA
| | - Rulin Feng
- Department of Chemistry, Washington State University, Pullman, Washington 99164, USA
| | - Carolyn I Pearce
- Pacific Northwest National Laboratory, Richland, Washington 99352, USA
| | | | - Aurora E Clark
- Department of Chemistry, Washington State University, Pullman, Washington 99164, USA
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11
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Cook AW, Hrobárik P, Damon PL, Najera D, Horváth B, Wu G, Hayton TW. Synthesis and Characterization of a Linear, Two-Coordinate Pt(II) Ketimide Complex. Inorg Chem 2019; 58:15927-15935. [DOI: 10.1021/acs.inorgchem.9b02443] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Andrew W. Cook
- Department of Chemistry and Biochemistry, University of California Santa Barbara, Santa Barbara, California 93106, United States
| | - Peter Hrobárik
- Department of Inorganic Chemistry, Faculty of Natural Sciences, Comenius University, SK-84215 Bratislava, Slovakia
| | - Peter L. Damon
- Department of Chemistry and Biochemistry, University of California Santa Barbara, Santa Barbara, California 93106, United States
| | - Daniel Najera
- Department of Chemistry and Biochemistry, University of California Santa Barbara, Santa Barbara, California 93106, United States
| | - Branislav Horváth
- Central NMR Laboratory, Faculty of Pharmacy, Comenius University, SK-83232 Bratislava, Slovakia
| | - Guang Wu
- Department of Chemistry and Biochemistry, University of California Santa Barbara, Santa Barbara, California 93106, United States
| | - Trevor W. Hayton
- Department of Chemistry and Biochemistry, University of California Santa Barbara, Santa Barbara, California 93106, United States
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12
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Semenov VA, Samultsev DO, Rusakova IL, Krivdin LB. Computational Multinuclear NMR of Platinum Complexes: A Relativistic Four-Component Study. J Phys Chem A 2019; 123:4908-4920. [DOI: 10.1021/acs.jpca.9b02867] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Valentin A. Semenov
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, Favorsky St. 1, 664033 Irkutsk, Russian Federation
| | - Dmitry O. Samultsev
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, Favorsky St. 1, 664033 Irkutsk, Russian Federation
| | - Irina L. Rusakova
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, Favorsky St. 1, 664033 Irkutsk, Russian Federation
| | - Leonid B. Krivdin
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, Favorsky St. 1, 664033 Irkutsk, Russian Federation
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13
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Castro AC, Fliegl H, Cascella M, Helgaker T, Repisky M, Komorovsky S, Medrano MÁ, Quiroga AG, Swart M. Four-component relativistic 31P NMR calculations for trans-platinum(ii) complexes: importance of the solvent and dynamics in spectral simulations. Dalton Trans 2019; 48:8076-8083. [PMID: 30916692 DOI: 10.1039/c9dt00570f] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
We report a combined experimental-theoretical study on the 31P NMR chemical shift for a number of trans-platinum(ii) complexes. Validity and reliability of the 31P NMR chemical shift calculations are examined by comparing with the experimental data. A successful computational protocol for the accurate prediction of the 31P NMR chemical shifts was established for trans-[PtCl2(dma)PPh3] (dma = dimethylamine) complexes. The reliability of the computed values is shown to be critically dependent on the level of relativistic effects (two-component vs. four component), choice of density functionals, dynamical averaging, and solvation effects. Snapshots obtained from ab initio molecular dynamics simulations were used to identify those solvent molecules which show the largest interactions with the platinum complex, through inspection by using the non-covalent interaction program. We observe satisfactory accuracy from the full four-component matrix Dirac-Kohn-Sham method (mDKS) based on the Dirac-Coulomb Hamiltonian, in conjunction with the KT2 density functional, and dynamical averaging with explicit solvent molecules.
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Affiliation(s)
- Abril C Castro
- Institut de Química Computacional i Catàlisi (IQCC), Departament de Química, Universitat de Girona, Campus Montilivi, 17003, Girona, Spain.
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14
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Engelbrecht L, Mocci F, Laaksonen A, Koch KR. 195Pt NMR and Molecular Dynamics Simulation Study of the Solvation of [PtCl 6] 2- in Water-Methanol and Water-Dimethoxyethane Binary Mixtures. Inorg Chem 2018; 57:12025-12037. [PMID: 30215514 DOI: 10.1021/acs.inorgchem.8b01554] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The experimental 195Pt NMR chemical shift, δ(195Pt), of the [PtCl6]2- anion dissolved in binary mixtures of water and a fully miscible organic solvent is extremely sensitive to the composition of the mixture at room temperature. Significantly nonlinear δ(195Pt) trends as a function of solvent composition are observed in mixtures of water-methanol, or ethylene glycol, 2-methoxyethanol, and 1,2-dimethoxyethane (DME). The extent of the deviation from linearity of the δ(195Pt) trend depends strongly on the nature of the organic component in these solutions, which broadly suggests preferential solvation of the [PtCl6]2- anion by the organic molecule. This simplistic interpretation is based on an accepted view pertaining to monovalent cations in similar binary solvent mixtures. To elucidate these phenomena in detail, classical molecular dynamics computer simulations were performed for [PtCl6]2- in water-methanol and water-DME mixtures using the anionic charge scaling approach to account for the effect of electronic dielectric screening. Our simulations suggest that the simplistic model of preferential solvation of [PtCl6]2- by the organic component as inferred from nonlinear δ(195Pt) trends is not entirely accurate, particularly for water-DME mixtures. The δ(195Pt) trend in these mixtures levels off for high DME mole fractions, which results from apparent preferential location of [PtCl6]2- anions at the borders of water-rich regions or clusters within these inherently micro-heterogeneous mixtures. By contrast in water-methanol mixtures, apparently less pronounced mixed solvent micro-heterogeneity is found, suggesting the experimental δ(195Pt) trend is consistent with a more moderate preferential solvation of [PtCl6]2- anions. This finding underlines the important role of solvent-solvent interactions and micro-heterogeneity in determining the solvation environment of [PtCl6]2- anions in binary solvent mixtures, probed by highly sensitive 195Pt NMR. The notion that preferential solvation of [PtCl6]2- results primarily from competing ion-solvent interactions as generally assumed for monatomic ions, may not be appropriate in general.
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Affiliation(s)
- Leon Engelbrecht
- Department of Chemistry and Polymer Science , Stellenbosch University , Private Bag X1 , Matieland 7602 , South Africa.,Department of Chemical and Geological Sciences , University of Cagliari , I-09042 Monserrato , Italy.,Division of Physical Chemistry, Department of Materials and Environmental Chemistry, Arrhenius Laboratory , Stockholm University , 10691 Stockholm , Sweden
| | - Francesca Mocci
- Department of Chemical and Geological Sciences , University of Cagliari , I-09042 Monserrato , Italy
| | - Aatto Laaksonen
- Division of Physical Chemistry, Department of Materials and Environmental Chemistry, Arrhenius Laboratory , Stockholm University , 10691 Stockholm , Sweden.,Department of Chemistry-Ångström Laboratory , Uppsala University , Box 538, SE-75121 Uppsala , Sweden
| | - Klaus R Koch
- Department of Chemistry and Polymer Science , Stellenbosch University , Private Bag X1 , Matieland 7602 , South Africa
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15
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Graham TR, Dembowski M, Martinez-Baez E, Zhang X, Jaegers NR, Hu J, Gruszkiewicz MS, Wang HW, Stack AG, Bowden ME, Delegard CH, Schenter GK, Clark AE, Clark SB, Felmy AR, Rosso KM, Pearce CI. In Situ 27Al NMR Spectroscopy of Aluminate in Sodium Hydroxide Solutions above and below Saturation with Respect to Gibbsite. Inorg Chem 2018; 57:11864-11873. [PMID: 30036042 DOI: 10.1021/acs.inorgchem.8b00617] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Trent R. Graham
- The Voiland School of Chemical and Biological Engineering, Washington State University, Pullman, Washington 99164, United States
| | - Mateusz Dembowski
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Ernesto Martinez-Baez
- Department of Chemistry, Washington State University, Pullman, Washington 99164, United States
| | - Xin Zhang
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Nicholas R. Jaegers
- The Voiland School of Chemical and Biological Engineering, Washington State University, Pullman, Washington 99164, United States
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Jianzhi Hu
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | | | - Hsiu-Wen Wang
- Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Andrew G. Stack
- Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Mark E. Bowden
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | | | - Gregory K. Schenter
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Aurora E. Clark
- Department of Chemistry, Washington State University, Pullman, Washington 99164, United States
| | - Sue B. Clark
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
- Department of Chemistry, Washington State University, Pullman, Washington 99164, United States
| | - Andrew R. Felmy
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
- Department of Chemistry, Washington State University, Pullman, Washington 99164, United States
| | - Kevin M. Rosso
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Carolyn I. Pearce
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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16
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Marchenko A, Truflandier LA, Autschbach J. Uranyl Carbonate Complexes in Aqueous Solution and Their Ligand NMR Chemical Shifts and 17O Quadrupolar Relaxation Studied by ab Initio Molecular Dynamics. Inorg Chem 2017; 56:7384-7396. [PMID: 28598146 DOI: 10.1021/acs.inorgchem.7b00396] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Dynamic structural effects, NMR ligand chemical shifts, and 17O NMR quadrupolar relaxation rates are investigated in the series of complexes UO22+, UO2(CO3)34-, and (UO2)3(CO3)66-. Car-Parrinello molecular dynamics (CPMD) is used to simulate the dynamics of the complexes in water. NMR properties are computed on clusters extracted from the CPMD trajectories. In the UO22+ complex, coordination at the uranium center by water molecules causes a decrease of around 300 ppm for the uranyl 17O chemical shift. The final value of this chemical shift is within 40 ppm of the experimental range. The UO2(CO3)34- and (UO2)3(CO3)66- complexes show a solvent dependence of the terminal carbonate 17O and 13C chemical shifts that is less pronounced than that for the uranyl oxygen atom. Corrections to the chemical shift from hybrid functionals and spin-orbit coupling improve the accuracy of chemical shifts if the sensitivity of the uranyl chemical shift to the uranyl bond length (estimated at 140 ppm per 0.1 Å from trajectory data) is taken into consideration. The experimentally reported trend in the two unique 13C chemical shifts is correctly reproduced for (UO2)3(CO3)66-. NMR relaxation rate data support large 17O peak widths, but remain below those noted in the experimental literature. Comparison of relaxation data for solvent-including versus solvent-free models suggest that carbonate ligand motion overshadows explicit solvent effects.
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Affiliation(s)
- Alex Marchenko
- Department of Chemistry, University at Buffalo, State University of New York , Buffalo, New York 14260-3000, United States
| | - Lionel A Truflandier
- Institut des Sciences Moleculaires, Universite Bordeaux , CNRS UMR 5255, 33405 Talence cedex, France
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York , Buffalo, New York 14260-3000, United States
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17
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Tsipis AC, Karapetsas IN. Prediction of 195 Pt NMR of photoactivable diazido- and azine-Pt(IV) anticancer agents by DFT computational protocols. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2017; 55:145-153. [PMID: 27628024 DOI: 10.1002/mrc.4523] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2016] [Revised: 09/03/2016] [Accepted: 09/05/2016] [Indexed: 06/06/2023]
Abstract
195 Pt NMR chemical shifts for a series of large-sized photoactivable anticancer diazido-Pt(IV), homopiperizine-Pt(IV) and multifunctional azine-Pt(IV) complexes hardly to be probed experimentally and by sophisticated four-component and two-component relativistic calculations are predicted with high accuracy by density functional theory computational protocols. The calculated 195 Pt NMR chemical shifts constitute a crucial descriptor for making highly predictive one-parameter quantitative structure activity relationships models that help in designing photoactivable Pt(IV)-based antitumor agents with high cytotoxicity and selectivity. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Athanassios C Tsipis
- Laboratory of Inorganic and General Chemistry, Department of Chemistry, University of Ioannina, Ioannina, Greece
| | - Ioannis N Karapetsas
- Laboratory of Inorganic and General Chemistry, Department of Chemistry, University of Ioannina, Ioannina, Greece
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18
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Paschoal D, Guerra CF, de Oliveira MAL, Ramalho TC, Dos Santos HF. Predicting Pt-195 NMR chemical shift using new relativistic all-electron basis set. J Comput Chem 2016; 37:2360-73. [DOI: 10.1002/jcc.24461] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Revised: 05/23/2016] [Accepted: 07/13/2016] [Indexed: 01/26/2023]
Affiliation(s)
- D. Paschoal
- NEQC: Núcleo de Estudos em Química Computacional, Departamento de Química - ICE, Universidade Federal de Juiz de Fora, Campus Universitário, 36.036-900; Juiz de Fora MG Brasil
- NQTCM: Núcleo de Química Teórica e Computacional de Macaé, Polo Ajuda, Universidade Federal do Rio de Janeiro, Campus UFRJ-Macaé, 27.971-525; Macaé RJ Brasil
| | - C. Fonseca Guerra
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling; Vrije Universiteit Amsterdam; De Boelelaan 1083 Amsterdam HV 1081 the Netherlands
| | - M. A. L. de Oliveira
- GQAQ: Grupo de Química Analítica e Quimiometria, Departamento de Química - ICE, Universidade Federal de Juiz de Fora, Campus Universitário, 36.036-900; Juiz de Fora MG Brasil
| | - T. C. Ramalho
- GQC: Grupo de Química Computacional, Departamento de Química, Universidade Federal de Lavras, 37.200-000; Lavras MG Brasil
| | - H. F. Dos Santos
- NEQC: Núcleo de Estudos em Química Computacional, Departamento de Química - ICE, Universidade Federal de Juiz de Fora, Campus Universitário, 36.036-900; Juiz de Fora MG Brasil
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19
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Vidossich P, Lledós A, Ujaque G. First-Principles Molecular Dynamics Studies of Organometallic Complexes and Homogeneous Catalytic Processes. Acc Chem Res 2016; 49:1271-8. [PMID: 27268523 DOI: 10.1021/acs.accounts.6b00054] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Computational chemistry is a valuable aid to complement experimental studies of organometallic systems and their reactivity. It allows probing mechanistic hypotheses and investigating molecular structures, shedding light on the behavior and properties of molecular assemblies at the atomic scale. When approaching a chemical problem, the computational chemist has to decide on the theoretical approach needed to describe electron/nuclear interactions and the composition of the model used to approximate the actual system. Both factors determine the reliability of the modeling study. The community dedicated much effort to developing and improving the performance and accuracy of theoretical approaches for electronic structure calculations, on which the description of (inter)atomic interactions rely. Here, the importance of the model system used in computational studies is highlighted through examples from our recent research focused on organometallic systems and homogeneous catalytic processes. We show how the inclusion of explicit solvent allows the characterization of molecular events that would otherwise not be accessible in reduced model systems (clusters). These include the stabilization of nascent charged fragments via microscopic solvation (notably, hydrogen bonding), transfer of charge (protons) between distant fragments mediated by solvent molecules, and solvent coordination to unsaturated metal centers. Furthermore, when weak interactions are involved, we show how conformational and solvation properties of organometallic complexes are also affected by the explicit inclusion of solvent molecules. Such extended model systems may be treated under periodic boundary conditions, thus removing the cluster/continuum (or vacuum) boundary, and require a statistical mechanics simulation technique to sample the accessible configurational space. First-principles molecular dynamics, in which atomic forces are computed from electronic structure calculations (namely, density functional theory), is certainly the technique of choice to investigate chemical events in solution. This methodology is well established and thanks to advances in both algorithms and computational resources simulation times required for the modeling of chemical events are nowadays accessible, though the computational requirements use to be high. Specific applications reviewed here include mechanistic studies of the Shilov and Wacker processes, speciation in Pd chemistry, hydrogen bonding to metal centers, and the dynamics of agostic interactions.
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Affiliation(s)
- Pietro Vidossich
- Departament de Química,
Edifici C.n., Universitat Autònoma de Barcelona, 08193 Cerdanyola del Vallès, Catalonia, Spain
| | - Agustí Lledós
- Departament de Química,
Edifici C.n., Universitat Autònoma de Barcelona, 08193 Cerdanyola del Vallès, Catalonia, Spain
| | - Gregori Ujaque
- Departament de Química,
Edifici C.n., Universitat Autònoma de Barcelona, 08193 Cerdanyola del Vallès, Catalonia, Spain
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20
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Kroutil O, Předota M, Chval Z. Pt···H Nonclassical Interaction in Water-Dissolved Pt(II) Complexes: Coaction of Electronic Effects with Solvent-Assisted Stabilization. Inorg Chem 2016; 55:3252-64. [DOI: 10.1021/acs.inorgchem.5b02261] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Ondřej Kroutil
- Institute of Laboratory Diagnostics and Public Health,
Faculty of Health and Social Studies, University of South Bohemia, J.
Boreckého 27, 37011 České Budějovice, Czech Republic
- Institute of Physics and Biophysics, Faculty of Science, University of South Bohemia, Branišovská 1760, 37005 České Budějovice, Czech Republic
| | - Milan Předota
- Institute of Physics and Biophysics, Faculty of Science, University of South Bohemia, Branišovská 1760, 37005 České Budějovice, Czech Republic
| | - Zdeněk Chval
- Institute of Laboratory Diagnostics and Public Health,
Faculty of Health and Social Studies, University of South Bohemia, J.
Boreckého 27, 37011 České Budějovice, Czech Republic
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21
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Aono S, Mori T, Sakaki S. 3D-RISM-MP2 Approach to Hydration Structure of Pt(II) and Pd(II) Complexes: Unusual H-Ahead Mode vs Usual O-Ahead One. J Chem Theory Comput 2016; 12:1189-206. [PMID: 26863511 DOI: 10.1021/acs.jctc.5b01137] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Solvation of transition metal complexes with water has been one of the fundamental topics in physical and coordination chemistry. In particular, Pt(II) complexes have recently attracted considerable interest for their relation to anticancer activity in cisplatin and its analogues, yet the interaction of the water molecule and the metal center has been obscured. The challenge from a theoretical perspective remains that both the microscopic solvation effect and the dynamical electron correlation (DEC) effect have to be treated simultaneously in a reasonable manner. In this work we derive the analytical gradient for the three-dimensional reference interaction site model Møller-Plesset second order (3D-RISM-MP2) free energy. On the basis of the three-regions 3D-RISM self-consistent field (SCF) method recently proposed by us, we apply a new layer of the Z-vector method to the CP-RISM equation as well as point-charge approximation to the derivatives with respect to the density matrix elements in the RISM-CPHF equation to remarkably reduce the computational cost. This method is applied to study the interaction of H2O with the d(8) square planar transition metal complexes in aqueous solution, trans-[Pt(II)Cl2(NH3)(glycine)] (1a), [Pt(II)(NH3)4](2+) (1b), [Pt(II)(CN)4](2-) (1c), and their Pd(II) analogues 2a, 2b, and 2c, respectively, to elucidate whether the usual H2O interaction through O atom (O-ahead mode) or unusual one through H atom (H-ahead mode) is stable in these complexes. We find that the interaction energy of the coordinating water and the transition metal complex changes little when switching from gas to aqueous phase, but the solvation free energy differs remarkably between the two interaction modes, thereby affecting the relative stability of the H-ahead and O-ahead modes. Particularly, in contrast to the expectation that the O-ahead mode is preferred due to the presence of positive charges in 1b, the H-ahead mode is also found to be more stable. The O-ahead mode is found to be more stable than the H-ahead one only in 2b. The energy decomposition analysis (EDA) at the 3D-RISM-MP2 level revealed that the O-ahead mode is stabilized by the electrostatic (ES) interaction, whereas the H-ahead one is mainly stabilized by the DEC effect. The ES interaction is also responsible for the difference between the Pd(II) and Pt(II) complexes; because the electrostatic potential is more negative along the z-axis in the Pt(II) complex than in the Pd(II) one, the O-ahead mode prefers the Pd(II) complexes, whereas the H-ahead becomes predominant in the Pt(II) complexes.
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Affiliation(s)
- Shinji Aono
- Fukui Institute for Fundamental Chemistry, Kyoto University , Nishihiraki-cho, Takano, Sakyo-ku, Kyoto 606-8103, Japan
| | - Toshifumi Mori
- Institute for Molecular Science , Okazaki, Aichi 444-8585, Japan.,School of Physical Sciences, The Graduate University for Advanced Studies , Okazaki, Aichi 444-8585, Japan
| | - Shigeyoshi Sakaki
- Fukui Institute for Fundamental Chemistry, Kyoto University , Nishihiraki-cho, Takano, Sakyo-ku, Kyoto 606-8103, Japan
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22
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Zhao S, Zhang RB. Alternative role of cisplatin in DNA damage – theoretical studies on the influence of excess electrons on the cisplatin–DNA complex. RSC Adv 2016. [DOI: 10.1039/c6ra17919c] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Interaction of excess electrons with cisplatin–DNA generates highly reactive Pt-containing species towards C–H abstraction, which strongly contributes to DNA damage.
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Affiliation(s)
- Shuang Zhao
- School of Chemistry
- Beijing Institute of Technology
- Beijing
- China
| | - Ru-bo Zhang
- School of Chemistry
- Beijing Institute of Technology
- Beijing
- China
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23
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Nguyen TT, Jung J, Trivelli X, Trébosc J, Cordier S, Molard Y, Le Pollès L, Pickard CJ, Cuny J, Gautier R. Evaluation of 95Mo Nuclear Shielding and Chemical Shift of [Mo6X14]2– Clusters in the Liquid Phase. Inorg Chem 2015. [DOI: 10.1021/acs.inorgchem.5b00396] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Thi Thuong Nguyen
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
| | - Julie Jung
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
| | - Xavier Trivelli
- Unité de
Glycobiologie Structurale et Fonctionnelle, UMR 8576 CNRS—Université Lille 1, IFR 147, Cité Scientifique Bâtiment
C9, 59655 Villeneuve
d’Ascq, France
| | - Julien Trébosc
- Unité de Catalyse
et Chimie du Solide, UMR 8181 CNRS—Université de Lille 1, 59655 Villeneuve d’Ascq, France
| | - Stéphane Cordier
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
| | - Yann Molard
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
| | - Laurent Le Pollès
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
| | - Chris J. Pickard
- Department of Physics and Astronomy, University College London, Gower
Street, London WC1E6BT, United Kingdom
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques
(LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route
de Narbonne, F-31062 Toulouse, France
| | - Régis Gautier
- Institut
des Sciences Chimiques de Rennes, UMR 6226 CNRS—Université de Rennes 1-Ecole Nationale Supérieure de Chimie de Rennes, 11 Allée de Beaulieu, 35708 Rennes, France
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24
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Greif AH, Hrobárik P, Hrobáriková V, Arbuznikov AV, Autschbach J, Kaupp M. A Relativistic Quantum-Chemical Analysis of the trans Influence on 1H NMR Hydride Shifts in Square-Planar Platinum(II) Complexes. Inorg Chem 2015; 54:7199-208. [DOI: 10.1021/acs.inorgchem.5b00446] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Anja H. Greif
- Institut für Chemie, Technische Universität Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Peter Hrobárik
- Institut für Chemie, Technische Universität Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Veronika Hrobáriková
- Institut für Chemie, Technische Universität Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Alexei V. Arbuznikov
- Institut für Chemie, Technische Universität Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260, United States
| | - Martin Kaupp
- Institut für Chemie, Technische Universität Berlin, Strasse des 17. Juni 135, 10623 Berlin, Germany
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25
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Melchior A, Tolazzi M, Martínez JM, Pappalardo RR, Sánchez Marcos E. Hydration of Two Cisplatin Aqua-Derivatives Studied by Quantum Mechanics and Molecular Dynamics Simulations. J Chem Theory Comput 2015; 11:1735-44. [DOI: 10.1021/ct500975a] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Andrea Melchior
- Department
of Environmental and Physical Chemistry, University of Udine, 33100 Udine, Udine, Italy
| | - Marilena Tolazzi
- Department
of Environmental and Physical Chemistry, University of Udine, 33100 Udine, Udine, Italy
| | - José Manuel Martínez
- Department
of Physical Chemistry, University of Seville, 41012 Seville, Seville, Spain
| | - Rafael R. Pappalardo
- Department
of Physical Chemistry, University of Seville, 41012 Seville, Seville, Spain
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26
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Vícha J, Novotný J, Straka M, Repisky M, Ruud K, Komorovsky S, Marek R. Structure, solvent, and relativistic effects on the NMR chemical shifts in square-planar transition-metal complexes: assessment of DFT approaches. Phys Chem Chem Phys 2015; 17:24944-55. [DOI: 10.1039/c5cp04214c] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The role of various factors (geometry, solvent, relativistic treatment, functional) influencing the relativistic NMR chemical shift calculations for square-planar transition-metal complexes.
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Affiliation(s)
- Jan Vícha
- CEITEC – Central European Institute of Technology
- Masaryk University
- CZ-62500 Brno
- Czech Republic
- Centre of Polymer Systems
| | - Jan Novotný
- CEITEC – Central European Institute of Technology
- Masaryk University
- CZ-62500 Brno
- Czech Republic
| | - Michal Straka
- CEITEC – Central European Institute of Technology
- Masaryk University
- CZ-62500 Brno
- Czech Republic
- Institute of Organic Chemistry and Biochemistry
| | - Michal Repisky
- Centre for Theoretical and Computational Chemistry
- Department of Chemistry
- UiT – The Arctic University of Norway
- N-9037 Tromsø
- Norway
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry
- Department of Chemistry
- UiT – The Arctic University of Norway
- N-9037 Tromsø
- Norway
| | - Stanislav Komorovsky
- Centre for Theoretical and Computational Chemistry
- Department of Chemistry
- UiT – The Arctic University of Norway
- N-9037 Tromsø
- Norway
| | - Radek Marek
- CEITEC – Central European Institute of Technology
- Masaryk University
- CZ-62500 Brno
- Czech Republic
- Department of Chemistry
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27
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28
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Lucier BEG, Johnston KE, Xu W, Hanson JC, Senanayake SD, Yao S, Bourassa MW, Srebro M, Autschbach J, Schurko RW. Unravelling the Structure of Magnus’ Pink Salt. J Am Chem Soc 2014; 136:1333-51. [DOI: 10.1021/ja4076277] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bryan E. G. Lucier
- Department
of Chemistry and Biochemistry, University of Windsor, Windsor, Ontario, Canada N9B 3P4
| | - Karen E. Johnston
- Department
of Chemistry and Biochemistry, University of Windsor, Windsor, Ontario, Canada N9B 3P4
| | - Wenqian Xu
- Department
of Chemistry, Brookhaven National Laboratory, Upton, New York 11973, United States
| | - Jonathan C. Hanson
- Department
of Chemistry, Brookhaven National Laboratory, Upton, New York 11973, United States
| | - Sanjaya D. Senanayake
- Department
of Chemistry, Brookhaven National Laboratory, Upton, New York 11973, United States
| | - Siyu Yao
- Center for Computational Science & Engineering, and PKU Green Chemistry Centre, Peking University, Beijing 100871, China
| | - Megan W. Bourassa
- Department
of Chemistry, Stony Brook University, Stony Brook, New York 11794, United States
| | - Monika Srebro
- Department
of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
- Department
of Theoretical Chemistry, Faculty of Chemistry, Jagiellonian University, 30-060 Krakow, Poland
| | - Jochen Autschbach
- Department
of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260-3000, United States
| | - Robert W. Schurko
- Department
of Chemistry and Biochemistry, University of Windsor, Windsor, Ontario, Canada N9B 3P4
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29
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Tsipis AC, Karapetsas IN. Accurate prediction of 195Pt NMR chemical shifts for a series of Pt(ii) and Pt(iv) antitumor agents by a non-relativistic DFT computational protocol. Dalton Trans 2014; 43:5409-26. [DOI: 10.1039/c3dt53594k] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Exhaustive benchmark DFT calculations reveal that the non-relativistic GIAO-PBE0/SARC-ZORA(Pt)∪6-31+G(d)(E) computational protocol predicts accurate 195Pt NMR chemical shifts for a wide range of square planar Pt(ii) and octahedral Pt(iv) anticancer agents.
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Affiliation(s)
- Athanassios C. Tsipis
- Laboratory of Inorganic and General Chemistry
- Department of Chemistry
- University of Ioannina
- , Greece
| | - Ioannis N. Karapetsas
- Laboratory of Inorganic and General Chemistry
- Department of Chemistry
- University of Ioannina
- , Greece
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30
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Cavigliasso G, Stranger R, Lo WK, Crowley JD, Blackman AG. The nature of species derived from [Pt(bipy)2]2+ in aqueous solution: X-ray structural, mass spectral, NMR, and computational studies. Polyhedron 2013. [DOI: 10.1016/j.poly.2013.05.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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31
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Melchior A, Martínez JM, Pappalardo RR, Sánchez Marcos E. Hydration of Cisplatin Studied by an Effective Ab Initio Pair Potential Including Solute–Solvent Polarization. J Chem Theory Comput 2013; 9:4562-73. [DOI: 10.1021/ct400433c] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Andrea Melchior
- University of Udine, Department of Environmental and
Physical Chemistry, 33100 Udine, Italy
- University of Seville, Department of Physical Chemistry, 41012 Seville, Spain
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32
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Badu S, Truflandier L, Autschbach J. Quadrupolar NMR Spin Relaxation Calculated Using Ab Initio Molecular Dynamics: Group 1 and Group 17 Ions in Aqueous Solution. J Chem Theory Comput 2013; 9:4074-86. [PMID: 26592401 DOI: 10.1021/ct400419s] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Electric field gradient (EFG) fluctuations for the monoatomic ions (7)Li(+), (23)Na(+), (35)Cl(-), (81)Br(-), and (127)I(-) in aqueous solution are studied using Car-Parrinello ab initio molecular dynamics (aiMD) simulations based on density functional theory. EFG calculations are typically performed with 1024 ion-solvent configurations from the aiMD simulation, using the Zeroth Order Regular Approximation (ZORA) relativistic Hamiltonian. Autocorrelation functions for the spherical EFG tensor elements are computed, transformed into the corresponding spectral densities (under the extreme narrowing condition), and subsequently converted into NMR quadrupolar relaxation rates for the ions. The relaxation rates are compared with experimental data. The order of magnitude is correctly predicted by the simulations. The computational protocol is tested in detail for (81)Br(-).
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Affiliation(s)
- Shyam Badu
- Department of Chemistry, University at Buffalo-State University of New York , Buffalo, New York 14260-3000, United States
| | - Lionel Truflandier
- Institut des Sciences Moléculaires, Université Bordeaux I , 351 Cours de la Libration, 33405 Talence, France
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo-State University of New York , Buffalo, New York 14260-3000, United States
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33
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Davis JC, Bühl M, Koch KR. Probing isotope shifts in 103Rh and 195Pt NMR spectra with density functional theory. J Phys Chem A 2013; 117:8054-64. [PMID: 23862753 DOI: 10.1021/jp405453c] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Zero-point vibrationally averaged (rg(0)) structures were computed at the PBE0/SDD/6-31G* level for the [Pt(35)Cln(37)Cl5-n(H2(18)O)](-) (n = 0-5), cis-Pt(35)Cln(37)Cl4-n(H2(18)O)(H2(16)O) (n = 0-4), fac-[Pt(35)Cln(37)Cl3-n(H2(18)O)(H2(16)O)2](+) (n = 0-3), [Pt(35)Cln(37)Cl5-n((16/18)OH)](2-) (n = 0-5), cis-[Pt(35)Cln(37)Cl4-n((16/18)OH)2](2-) (n = 0-4), fac-[Pt(35)Cln(37)Cl3-n((16/18)OH)3](2-) (n = 0-3), cis-[Pt(35)Cln(37)Cl2-n((16/18)OH)4](2-) (n = 0-2), [Pt(35)Cln(37)Cl1-n((16/18)OH)5](2-) (n = 0-1), [Rh(35)Cln(37)Cl5-n(H2O)](2-) (n = 0-5), cis-[Rh(35)Cln(37)Cl4-n(H2O)2](-) (n = 0-4), and fac-Rh(35)Cln(37)Cl3-n(H2O)3 (n = 0-3) isotopologues and isotopomers. Magnetic shielding constants, computed at the ZORA-SO/PW91/QZ4P/TZ2P level, were used to evaluate the corresponding (35/37)Cl isotope shifts on the (195)Pt and (103)Rh NMR spectra, which are known experimentally. While the observed effects are reproduced reasonably well computationally in terms of qualitative trends and the overall order of magnitude (ca. 1 ppm), quantitative agreement with experiment is not yet achieved. Only small changes in M-Cl and M-O bonds upon isotopic substitution, on the order of femtometers, are necessary to produce the observed isotope shifts.
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Affiliation(s)
- John C Davis
- School of Chemistry, University of St. Andrews, North Haugh, St. Andrews, Fife KY16 9ST, United Kingdom
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34
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Chval Z, Kabeláč M, Burda JV. Mechanism of the cis-[Pt(1R,2R-DACH)(H2O)2]2+ intrastrand binding to the double-stranded (pGpG)·(CpC) dinucleotide in aqueous solution: a computational DFT study. Inorg Chem 2013; 52:5801-13. [PMID: 23656523 DOI: 10.1021/ic302654s] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
A mechanism of the intrastrand 1,2-cross-link formation between the double-stranded pGpG·CpC dinucleotide (ds(pGpG)) and fully aquated oxaliplatin cis-[Pt(DACH)(H2O)2](2+) (DACH = cyclohexane-1R,2R-diamine) is presented. All structures of the reaction pathways including the transition states (TSs) were fully optimized in water solvent using DFT methodology with dispersion corrections. Both 5' → 3' and 3' → 5' binding directions were considered. In the first step there is a slight kinetic preference for 5'-guanine (5'G) monoadduct formation with an activation Gibbs free energy of 18.7 kcal/mol since the N7 center of the 5'G base is fully exposed to the solvent. On the other hand, the N7 atom of 3'-guanine (3'G) is sterically shielded by 5'G. The lowest energy path for formation of the 3'G monoadduct with an activation barrier of 19.3 kcal/mol is connected with a disruption of the 'DNA-like' structure of ds(pGpG). Monoadduct formation is the rate-determining process. The second step, chelate formation, is kinetically preferred in the 3' → 5' direction. The whole process of the platination is exergonic by up to -18.8 kcal/mol. Structural changes of ds(pGpG), charge transfer effects, and the influence of platination on the G·C base pair interaction strengths are also discussed in detail.
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Affiliation(s)
- Zdeněk Chval
- Department of Laboratory Methods and Information Systems, Faculty of Health and Social Studies, University of South Bohemia, J. Boreckého 27, 370 11 České Budějovice, Czech Republic.
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35
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Bergès J, Fourré I, Pilmé J, Kozelka J. Quantum Chemical Topology Study of the Water-Platinum(II) Interaction. Inorg Chem 2013; 52:1217-27. [DOI: 10.1021/ic301512c] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jacqueline Bergès
- Laboratoire de Chimie Théorique,
UMR 7616 CNRS, Université Pierre et Marie Curie, Sorbonne Universités, Case Courier 137, 4 place Jussieu,
75252 Paris Cedex 05, France
- Université Paris Descartes, 75270
Paris, France
| | - Isabelle Fourré
- Laboratoire de Chimie Théorique,
UMR 7616 CNRS, Université Pierre et Marie Curie, Sorbonne Universités, Case Courier 137, 4 place Jussieu,
75252 Paris Cedex 05, France
| | - Julien Pilmé
- Laboratoire de Chimie Théorique,
UMR 7616 CNRS, Université Pierre et Marie Curie, Sorbonne Universités, Case Courier 137, 4 place Jussieu,
75252 Paris Cedex 05, France
| | - Jiri Kozelka
- Laboratoire
de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR-CNRS 8601, 75270
Paris, France
- Institute
of Condensed Matter Physics, Faculty of Science, Masaryk University, Kotlářská 2, 61137
Brno, Czech Republic
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36
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Vícha J, Patzschke M, Marek R. A relativistic DFT methodology for calculating the structures and NMR chemical shifts of octahedral platinum and iridium complexes. Phys Chem Chem Phys 2013; 15:7740-54. [DOI: 10.1039/c3cp44440f] [Citation(s) in RCA: 70] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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37
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Pauwels E, Claeys D, Martins JC, Waroquier M, Bifulco G, Speybroeck VV, Madder A. Accurate prediction of 1H chemical shifts in interstrand cross-linked DNA. RSC Adv 2013. [DOI: 10.1039/c3ra22408b] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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38
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Sutter K, Autschbach J. Computational study and molecular orbital analysis of NMR shielding, spin-spin coupling, and electric field gradients of azido platinum complexes. J Am Chem Soc 2012; 134:13374-85. [PMID: 22794134 DOI: 10.1021/ja3040762] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
(195)Pt, (14)N, and (15)N NMR data for five azido (N(3)(-)) complexes are studied using relativistic density functional theory (DFT). Good agreement with experiment is obtained for Pt and N chemical shifts as well as Pt-N J-coupling constants. Calculated (14)N electric field gradients (EFGs) reflect experimentally observed trends for the line broadening of azido (14)N NMR signals. A localized molecular orbital analysis of the nitrogen EFGs and chemical shifts is performed to explain some interesting trends seen experimentally and in the first-principles calculations: (i) (14)N NMR signals for the Pt-coordinating (N(α)) nuclei in the azido ligands are much broader than for the central (N(β)) or terminal (N(γ)) atoms. The N(β) signals are particularly narrow; (ii) compared to N(γ), the N(α) nuclei are particularly strongly shielded; (iii) N(β) nuclei have much larger chemical shifts than N(α) and N(γ) ; and (iv) The Pt-N(α) J-coupling constants are small in magnitude when considering the formal sp hybridization of N(α). It is found that for N(α) a significant shielding reduction due to formation of the dative N(α)-Pt bond is counterbalanced by an increased shielding from spin-orbit (SO) coupling originating at Pt. Upon coordination, the strongly delocalized π system of free azide localizes somewhat on N(β) and N(γ). This effect, along with rehybridization at N(α) upon bond formation with Pt, is shown to cause a deshielding of N(γ) relative to N(α) and a strong increase of the EFG at N(α). The large 2p character of the azide σ bonds is responsible for the particularly high N(β) chemical shifts. The nitrogen s-character of the Pt-N(α) bond is low, which is the reason for the small J-coupling. Similar bonding situations are likely to be found in azide complexes with other transition metals.
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Affiliation(s)
- Kiplangat Sutter
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA
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39
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Nguyen TH, Arnesano F, Scintilla S, Rossetti G, Ippoliti E, Carloni P, Natile G. Structural Determinants of Cisplatin and Transplatin Binding to the Met-Rich Motif of Ctr1: A Computational Spectroscopy Approach. J Chem Theory Comput 2012; 8:2912-20. [DOI: 10.1021/ct300167m] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Trung Hai Nguyen
- Computational Biophysics, German Research School for Simulation Sciences, D-52425 Jülich, Germany,
and Institute for Advanced Simulation, Forschungszentrum Jülich, D-52425 Jülich, Germany
| | - Fabio Arnesano
- Department Farmaco-Chimico, University of Bari “A. Moro”, via Edoardo
Orabona 4, 70125 Bari, Italy
| | - Simone Scintilla
- Department Farmaco-Chimico, University of Bari “A. Moro”, via Edoardo
Orabona 4, 70125 Bari, Italy
| | - Giulia Rossetti
- Computational Biophysics, German Research School for Simulation Sciences, D-52425 Jülich, Germany,
and Institute for Advanced Simulation, Forschungszentrum Jülich, D-52425 Jülich, Germany
| | - Emiliano Ippoliti
- Computational Biophysics, German Research School for Simulation Sciences, D-52425 Jülich, Germany,
and Institute for Advanced Simulation, Forschungszentrum Jülich, D-52425 Jülich, Germany
| | - Paolo Carloni
- Computational Biophysics, German Research School for Simulation Sciences, D-52425 Jülich, Germany,
and Institute for Advanced Simulation, Forschungszentrum Jülich, D-52425 Jülich, Germany
- Statistical and Biological Physics Sector, Scuola Internazionale Superiore di Studi Avanzati (SISSA), Via Bonomea 265,
I-34136 Trieste, Italy
| | - Giovanni Natile
- Department Farmaco-Chimico, University of Bari “A. Moro”, via Edoardo
Orabona 4, 70125 Bari, Italy
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40
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Davis JC, Bühl M, Koch KR. On the Origin of 35/37Cl Isotope Effects on 195Pt NMR Chemical Shifts. A Density Functional Study. J Chem Theory Comput 2012; 8:1344-50. [DOI: 10.1021/ct300105q] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- John C. Davis
- School of Chemistry, University of St. Andrews, North Haugh, St. Andrews,
Fife KY16 9ST, U.K
- Department
of Chemistry and
Polymer Science, University of Stellenbosch, P Bag X1, Matieland, 7602, South Africa
| | - Michael Bühl
- School of Chemistry, University of St. Andrews, North Haugh, St. Andrews,
Fife KY16 9ST, U.K
| | - Klaus R. Koch
- Department
of Chemistry and
Polymer Science, University of Stellenbosch, P Bag X1, Matieland, 7602, South Africa
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41
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Farrer NJ, Gierth P, Sadler PJ. Probing platinum azido complexes by 14N and 15N NMR spectroscopy. Chemistry 2011; 17:12059-66. [PMID: 21922574 DOI: 10.1002/chem.201101409] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2011] [Indexed: 01/12/2023]
Abstract
Metal azido complexes are of general interest due to their high energetic properties, and platinum azido complexes in particular because of their potential as photoactivatable anticancer prodrugs. However, azido ligands are difficult to probe by NMR spectroscopy due to the quadrupolar nature of (14)N and the lack of scalar (1)H coupling to enhance the sensitivity of the less abundant (15)N by using polarisation transfer. In this work, we report (14)N and (15)N NMR spectroscopic studies of cis,trans,cis-[Pt(N(3))(2)(OH)(2)(NH(3))] (1) and trans,trans,trans-[Pt(N(3))(2)(OH)(2)(X)(Y)], where X=Y=NH(3) (2); X=NH(3), Y=py (3) (py=pyridine); X=Y=py (4); and selected Pt(II) precursors. These studies provide the first (15)N NMR data for azido groups in coordination complexes. We discuss one- and three-bond J((15)N,(195)Pt) couplings for azido and am(m)ine ligands. The (14)N(α) (coordinated azido nitrogen) signal in the Pt(IV) azido complexes is extremely broad (W(1/2)≈2124 Hz for 4) in comparison to other metal azido complexes, attributable to a highly asymmetrical electric field gradient at the (14)N(α) atom. Through the use of anti-ringing pulse sequences, the (14)N NMR spectra, which show resolution of the broad (14)N(α) peak, were obtained rapidly (e.g., 1.5 h for 10 mM 4). The linewidths of the (14)N(α) signals correlate with the viscosity of the solvent. For (15) N-enriched samples, it is possible to detect azido (15)N resonances directly, which will allow photoreactions to be followed by 1D (15)N NMR spectroscopy. The T(1) relaxation times for 3 and 4 were in the range 5.7-120 s for (15)N, and 0.9-11.3 ms for (14)N. Analysis of the (1)J((15)N,(195)Pt) coupling constants suggests that an azido ligand has a moderately strong trans influence in octahedral Pt(IV) complexes, within the series 2-pic<py<NH(3)<Cl(-)<N(3)(-)<NO(2)(-)<SCN(-) (2-pic=2-methylpyridine). In addition, an axial Cl(-) appears to weaken an equatorial Pt(IV)-NH(3) bond to a greater extent than an axial OH(-) ligand.
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Affiliation(s)
- Nicola J Farrer
- Department of Chemistry, University of Warwick, Coventry CV4 7AL, UK.
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42
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Bowron DT, Beret EC, Martin-Zamora E, Soper AK, Sánchez Marcos E. Axial Structure of the Pd(II) Aqua Ion in Solution. J Am Chem Soc 2011; 134:962-7. [DOI: 10.1021/ja206422w] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Daniel T. Bowron
- ISIS Facility, Rutherford Appleton Laboratory, Harwell Science and Innovation Campus, Didcot OX11 0QX, United Kingdom
| | | | | | - Alan K. Soper
- ISIS Facility, Rutherford Appleton Laboratory, Harwell Science and Innovation Campus, Didcot OX11 0QX, United Kingdom
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43
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Lucier BE, Reidel AR, Schurko RW. Multinuclear solid-state NMR of square-planar platinum complexes — Cisplatin and related systems. CAN J CHEM 2011. [DOI: 10.1139/v11-033] [Citation(s) in RCA: 58] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Multinuclear solid-state nuclear magnetic resonance (SSNMR) experiments have been performed on cisplatin and four related square-planar compounds. The wideband uniform rate smooth truncation – Carr–Purcell–Meiboom–Gill (WURST–CPMG) pulse sequence was utilized in NMR experiments to acquire 195Pt, 14N, and 35Cl ultra-wideline NMR spectra of high quality. Standard Hahn-echo and magic-angle spinning 195Pt NMR experiments are also performed to refine extracted chemical shielding (CS) tensor parameters. Platinum magnetic shielding (MS) tensor orientations are calculated using both plane-wave density functional theory (DFT) and standard DFT methods. The tensor orientations are shown to be highly constrained by molecular symmetry elements, but also influenced to some degree by intermolecular interactions. 14N WURST–CPMG experiments were performed on three compounds and electric field gradient (EFG) parameters (the quadrupolar coupling constant, CQ, and the asymmetry parameter, ηQ) are reported. First principles calculations of the 14N EFG tensor parameters and orientations and affirm their dependence on the local hydrogen bonding environment. 35Cl WURST–CPMG experiments on cisplatin and transplatin are reported, using two different static magnetic fields to extract EFG and CS tensor parameters, and 35Cl EFG tensor magnitudes and orientations are predicted using first principles calculations. Transverse (T2) relaxation data for all nuclei are used to investigate heteronuclear dipolar relaxation mechanisms, as well as the nature of the local hydrogen bonding environments.
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Affiliation(s)
- Bryan E.G. Lucier
- Department of Chemistry and Biochemistry, University of Windsor, Windsor, ON N9B 3P4, Canada
| | - Alex R. Reidel
- Department of Chemistry and Biochemistry, University of Windsor, Windsor, ON N9B 3P4, Canada
| | - Robert W. Schurko
- Department of Chemistry and Biochemistry, University of Windsor, Windsor, ON N9B 3P4, Canada
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44
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Vidossich P, Ortuño MÁ, Ujaque G, Lledós A. Do Metal⋅⋅⋅Water Hydrogen Bonds Hold in Solution? Insight from Ab Initio Molecular Dynamics Simulations. Chemphyschem 2011; 12:1666-8. [DOI: 10.1002/cphc.201100234] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2011] [Indexed: 11/11/2022]
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