101
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Holmes ST, Iuliucci RJ, Mueller KT, Dybowski C. Critical Analysis of Cluster Models and Exchange-Correlation Functionals for Calculating Magnetic Shielding in Molecular Solids. J Chem Theory Comput 2015; 11:5229-41. [DOI: 10.1021/acs.jctc.5b00752] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sean T. Holmes
- Department
of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
| | - Robbie J. Iuliucci
- Department
of Chemistry, Washington and Jefferson College, Washington, Pennsylvania 15301, United States
| | - Karl T. Mueller
- Department
of Chemistry, Pennsylvania State University, University Park, Pennsylvania 16802, United States
- Physical
and Computational Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Cecil Dybowski
- Department
of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, United States
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102
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Reid DM, Collins MA. Approximating CCSD(T) Nuclear Magnetic Shielding Calculations Using Composite Methods. J Chem Theory Comput 2015; 11:5177-81. [DOI: 10.1021/acs.jctc.5b00546] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- David M. Reid
- Research School of Chemistry, The Australian National University, Canberra, ACT 0200, Australia
| | - Michael A. Collins
- Research School of Chemistry, The Australian National University, Canberra, ACT 0200, Australia
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103
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Zuniga-Gutierrez B, Camacho-Gonzalez M, Bendana-Castillo A, Simon-Bastida P, Calaminici P, Köster AM. Efficient calculation of nuclear spin-rotation constants from auxiliary density functional theory. J Chem Phys 2015; 143:104103. [PMID: 26374014 DOI: 10.1063/1.4929999] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The computation of the spin-rotation tensor within the framework of auxiliary density functional theory (ADFT) in combination with the gauge including atomic orbital (GIAO) scheme, to treat the gauge origin problem, is presented. For the spin-rotation tensor, the calculation of the magnetic shielding tensor represents the most demanding computational task. Employing the ADFT-GIAO methodology, the central processing unit time for the magnetic shielding tensor calculation can be dramatically reduced. In this work, the quality of spin-rotation constants obtained with the ADFT-GIAO methodology is compared with available experimental data as well as with other theoretical results at the Hartree-Fock and coupled-cluster level of theory. It is found that the agreement between the ADFT-GIAO results and the experiment is good and very similar to the ones obtained by the coupled-cluster single-doubles-perturbative triples-GIAO methodology. With the improved computational performance achieved, the computation of the spin-rotation tensors of large systems or along Born-Oppenheimer molecular dynamics trajectories becomes feasible in reasonable times. Three models of carbon fullerenes containing hundreds of atoms and thousands of basis functions are used for benchmarking the performance. Furthermore, a theoretical study of temperature effects on the structure and spin-rotation tensor of the H(12)C-(12)CH-DF complex is presented. Here, the temperature dependency of the spin-rotation tensor of the fluorine nucleus can be used to identify experimentally the so far unknown bent isomer of this complex. To the best of our knowledge this is the first time that temperature effects on the spin-rotation tensor are investigated.
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Affiliation(s)
- Bernardo Zuniga-Gutierrez
- Departamento de Ciencias Computacionales, Universidad de Guadalajara, Blvd. Marcelino García Barragán 1421, C.P. 44430 Guadalajara, Jalisco, Mexico
| | - Monica Camacho-Gonzalez
- Universidad Tecnológica de Tecámac, División A2, Procesos Industriales, Carretera Federal México Pachuca Km 37.5, Col. Sierra Hermosa, C.P. 55740 Tecámac, Estado de México, Mexico
| | - Alfonso Bendana-Castillo
- Universidad Tecnológica de Tecámac, División A3, Tecnologías de la Información y Comunicaciones, Carretera Federal México Pachuca Km 37.5, Col. Sierra Hermosa, C.P. 55740 Tecámac, Estado de México, Mexico
| | - Patricia Simon-Bastida
- Universidad Tecnlógica de Tulancingo, División Electromecánica, Camino a Ahuehuetitla No. 301, Col. Las Presas, C.P. 43642 Tulancingo, Hidalgo, Mexico
| | - Patrizia Calaminici
- Departamento de Química, CINVESTAV, Avenida Instituto Politécnico Nacional 2508, A.P. 14-740, México D.F. 07000, Mexico
| | - Andreas M Köster
- Departamento de Química, CINVESTAV, Avenida Instituto Politécnico Nacional 2508, A.P. 14-740, México D.F. 07000, Mexico
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104
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Gerber IC, Jolibois F. Theoretical gas to liquid shift of (15)N isotropic nuclear magnetic shielding in nitromethane using ab initio molecular dynamics and GIAO/GIPAW calculations. Phys Chem Chem Phys 2015; 17:12222-7. [PMID: 25892187 DOI: 10.1039/c5cp00722d] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Chemical shift requires the knowledge of both the sample and a reference magnetic shielding. In few cases as nitrogen (15N), the standard experimental reference corresponds to its liquid phase. Theoretical estimate of NMR magnetic shielding parameters of compounds in their liquid phase is then mandatory but usually replaced by an easily-get gas phase value, forbidding direct comparisons with experiments. We propose here to combine ab initio molecular dynamic simulations with the calculations of magnetic shielding using GIAO approach on extracted cluster's structures from MD. Using several computational strategies, we manage to accurately calculate 15N magnetic shielding of nitromethane in its liquid phase. Theoretical comparison between liquid and gas phase allows us to extrapolate an experimental value for the 15N magnetic shielding of nitromethane in gas phase between -121.8 and -120.8 ppm.
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Affiliation(s)
- Iann C Gerber
- Université de Toulouse-INSA-UPS, LPCNO, CNRS UMR 5215, 135 av. de Rangueil, F-31077 Toulouse, France.
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105
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Rorick A, Michael MA, Yang L, Zhang Y. Toward Relatively General and Accurate Quantum Chemical Predictions of Solid-State (17)O NMR Chemical Shifts in Various Biologically Relevant Oxygen-Containing Compounds. J Phys Chem B 2015; 119:11618-25. [PMID: 26274812 PMCID: PMC4583422 DOI: 10.1021/acs.jpcb.5b06536] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Oxygen is an important element in most biologically significant molecules, and experimental solid-state (17)O NMR studies have provided numerous useful structural probes to study these systems. However, computational predictions of solid-state (17)O NMR chemical shift tensor properties are still challenging in many cases, and in particular, each of the prior computational works is basically limited to one type of oxygen-containing system. This work provides the first systematic study of the effects of geometry refinement, method, and basis sets for metal and nonmetal elements in both geometry optimization and NMR property calculations of some biologically relevant oxygen-containing compounds with a good variety of XO bonding groups (X = H, C, N, P, and metal). The experimental range studied is of 1455 ppm, a major part of the reported (17)O NMR chemical shifts in organic and organometallic compounds. A number of computational factors toward relatively general and accurate predictions of (17)O NMR chemical shifts were studied to provide helpful and detailed suggestions for future work. For the studied kinds of oxygen-containing compounds, the best computational approach results in a theory-versus-experiment correlation coefficient (R(2)) value of 0.9880 and a mean absolute deviation of 13 ppm (1.9% of the experimental range) for isotropic NMR shifts and an R(2) value of 0.9926 for all shift-tensor properties. These results shall facilitate future computational studies of (17)O NMR chemical shifts in many biologically relevant systems, and the high accuracy may also help the refinement and determination of active-site structures of some oxygen-containing substrate-bound proteins.
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Affiliation(s)
- Amber Rorick
- Department of Chemistry, Chemical Biology and Biomedical Engineering, Stevens Institute of Technology, 1 Castle Point on Hudson, Hoboken NJ 07030, USA
| | - Matthew A. Michael
- Department of Chemistry, Chemical Biology and Biomedical Engineering, Stevens Institute of Technology, 1 Castle Point on Hudson, Hoboken NJ 07030, USA
| | - Liu Yang
- Department of Chemistry, Chemical Biology and Biomedical Engineering, Stevens Institute of Technology, 1 Castle Point on Hudson, Hoboken NJ 07030, USA
| | - Yong Zhang
- Department of Chemistry, Chemical Biology and Biomedical Engineering, Stevens Institute of Technology, 1 Castle Point on Hudson, Hoboken NJ 07030, USA
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106
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Toomsalu E, Burk P. Critical test of some computational methods for prediction of NMR 1H and 13C chemical shifts. J Mol Model 2015; 21:244. [DOI: 10.1007/s00894-015-2787-x] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2015] [Accepted: 08/11/2015] [Indexed: 11/24/2022]
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107
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Furness JW, Verbeke J, Tellgren EI, Stopkowicz S, Ekström U, Helgaker T, Teale AM. Current Density Functional Theory Using Meta-Generalized Gradient Exchange-Correlation Functionals. J Chem Theory Comput 2015; 11:4169-81. [DOI: 10.1021/acs.jctc.5b00535] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- James W. Furness
- School
of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Joachim Verbeke
- School
of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Erik I. Tellgren
- Centre
for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O.
Box 1033, Blindern, N-0315, Oslo, Norway
| | - Stella Stopkowicz
- Centre
for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O.
Box 1033, Blindern, N-0315, Oslo, Norway
| | - Ulf Ekström
- Centre
for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O.
Box 1033, Blindern, N-0315, Oslo, Norway
| | - Trygve Helgaker
- Centre
for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O.
Box 1033, Blindern, N-0315, Oslo, Norway
| | - Andrew M. Teale
- School
of Chemistry, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
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108
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Komorovsky S, Repisky M, Malkin E, Demissie TB, Ruud K. Four-Component Relativistic Density-Functional Theory Calculations of Nuclear Spin–Rotation Constants: Relativistic Effects in p-Block Hydrides. J Chem Theory Comput 2015; 11:3729-39. [DOI: 10.1021/acs.jctc.5b00276] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Stanislav Komorovsky
- Department of Chemistry,
Centre for Theoretical and Computational Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Michal Repisky
- Department of Chemistry,
Centre for Theoretical and Computational Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Elena Malkin
- Department of Chemistry,
Centre for Theoretical and Computational Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Taye B. Demissie
- Department of Chemistry,
Centre for Theoretical and Computational Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Kenneth Ruud
- Department of Chemistry,
Centre for Theoretical and Computational Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
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109
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Ortiz PD, Ortiz M, Suardíaz R, Fragoso A, Ortiz PJ. Experimental and theoretical characterization of a novel bis-pyrazoylmethane ligand. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2015; 53:539-543. [PMID: 25916751 DOI: 10.1002/mrc.4242] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2015] [Revised: 02/26/2015] [Accepted: 03/07/2015] [Indexed: 06/04/2023]
Affiliation(s)
- Pedro D Ortiz
- Departamento de Química Inorgánica, Facultad de Química, Universidad de La Habana, La Habana, Cuba
| | - Mayreli Ortiz
- Nanobiotechnology E Bioanalysis Group, Departament d'Enginyeria Química, Universitat Rovira i Virgili, Tarragona, Spain
| | | | - Alex Fragoso
- Nanobiotechnology E Bioanalysis Group, Departament d'Enginyeria Química, Universitat Rovira i Virgili, Tarragona, Spain
| | - Pedro J Ortiz
- Departamento de Química-Física, Facultad de Química, Universidad de La Habana, La Habana, Cuba
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110
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Hartman JD, Neubauer TJ, Caulkins BG, Mueller LJ, Beran GJO. Converging nuclear magnetic shielding calculations with respect to basis and system size in protein systems. JOURNAL OF BIOMOLECULAR NMR 2015; 62:327-40. [PMID: 25993979 PMCID: PMC4512207 DOI: 10.1007/s10858-015-9947-2] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2015] [Accepted: 05/12/2015] [Indexed: 05/25/2023]
Abstract
Ab initio chemical shielding calculations greatly facilitate the interpretation of nuclear magnetic resonance (NMR) chemical shifts in biological systems, but the large sizes of these systems requires approximations in the chemical models used to represent them. Achieving good convergence in the predicted chemical shieldings is necessary before one can unravel how other complex structural and dynamical factors affect the NMR measurements. Here, we investigate how to balance trade-offs between using a better basis set or a larger cluster model for predicting the chemical shieldings of the substrates in two representative examples of protein-substrate systems involving different domains in tryptophan synthase: the N-(4'-trifluoromethoxybenzoyl)-2-aminoethyl phosphate (F9) ligand which binds in the α active site, and the 2-aminophenol quinonoid intermediate formed in the β active site. We first demonstrate that a chemically intuitive three-layer, locally dense basis model that uses a large basis on the substrate, a medium triple-zeta basis to describe its hydrogen-bonding partners and/or surrounding van der Waals cavity, and a crude basis set for more distant atoms provides chemical shieldings in good agreement with much more expensive large basis calculations. Second, long-range quantum mechanical interactions are important, and one can accurately estimate them as a small-basis correction to larger-basis calculations on a smaller cluster. The combination of these approaches enables one to perform density functional theory NMR chemical shift calculations in protein systems that are well-converged with respect to both basis set and cluster size.
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Affiliation(s)
- Joshua D. Hartman
- Department of Chemistry, University of California at Riverside, Riverside, CA 92521, Tel.: +1-951-827-7869
| | - Thomas J. Neubauer
- Department of Chemistry, University of California at Riverside, Riverside, CA 92521, Tel.: +1-951-827-7869
| | - Bethany G. Caulkins
- Department of Chemistry, University of California at Riverside, Riverside, CA 92521, Tel.: +1-951-827-7869
| | - Leonard J. Mueller
- Department of Chemistry, University of California at Riverside, Riverside, CA 92521, Tel.: +1-951-827-7869
| | - Gregory J. O. Beran
- Department of Chemistry, University of California at Riverside, Riverside, CA 92521, Tel.: +1-951-827-7869
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111
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Rusakov YY, Rusakova IL, Krivdin LB. MP2 calculation of (77) Se NMR chemical shifts taking into account relativistic corrections. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2015; 53:485-492. [PMID: 25998325 DOI: 10.1002/mrc.4226] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Revised: 01/26/2015] [Accepted: 01/29/2015] [Indexed: 06/04/2023]
Abstract
The main factors affecting the accuracy and computational cost of the Second-order Möller-Plesset perturbation theory (MP2) calculation of (77) Se NMR chemical shifts (methods and basis sets, relativistic corrections, and solvent effects) are addressed with a special emphasis on relativistic effects. For the latter, paramagnetic contribution (390-466 ppm) dominates over diamagnetic term (192-198 ppm) resulting in a total shielding relativistic correction of about 230-260 ppm (some 15% of the total values of selenium absolute shielding constants). Diamagnetic term is practically constant, while paramagnetic contribution spans over 70-80 ppm. In the (77) Se NMR chemical shifts scale, relativistic corrections are about 20-30 ppm (some 5% of the total values of selenium chemical shifts). Solvent effects evaluated within the polarizable continuum solvation model are of the same order of magnitude as relativistic corrections (about 5%). For the practical calculations of (77) Se NMR chemical shifts of the medium-sized organoselenium compounds, the most efficient computational protocols employing relativistic Dyall's basis sets and taking into account relativistic and solvent corrections are suggested. The best result is characterized by a mean absolute error of 17 ppm for the span of (77) Se NMR chemical shifts reaching 2500 ppm resulting in a mean absolute percentage error of 0.7%.
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Affiliation(s)
- Yury Yu Rusakov
- Siberian Branch of the Russian Academy of Sciences, A. E. Favorsky Irkutsk Institute of Chemistry, Favorsky St 1, Irkutsk, 664033, Russia
| | - Irina L Rusakova
- Siberian Branch of the Russian Academy of Sciences, A. E. Favorsky Irkutsk Institute of Chemistry, Favorsky St 1, Irkutsk, 664033, Russia
| | - Leonid B Krivdin
- Siberian Branch of the Russian Academy of Sciences, A. E. Favorsky Irkutsk Institute of Chemistry, Favorsky St 1, Irkutsk, 664033, Russia
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112
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Cheng CY, Ryley MS, Peach MJ, Tozer DJ, Helgaker T, Teale AM. Molecular properties in the Tamm–Dancoff approximation: indirect nuclear spin–spin coupling constants. Mol Phys 2015. [DOI: 10.1080/00268976.2015.1024182] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Chi Y. Cheng
- School of Chemistry, University of Nottingham, Nottingham, UK
| | | | | | | | - Trygve Helgaker
- Department of Chemistry, Centre for Theoretical and Computational Chemistry, University of Oslo, Oslo, Norway
| | - Andrew M. Teale
- School of Chemistry, University of Nottingham, Nottingham, UK
- Department of Chemistry, Centre for Theoretical and Computational Chemistry, University of Oslo, Oslo, Norway
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113
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Komorovsky S, Repisky M, Malkin E, Ruud K, Gauss J. Communication: The absolute shielding scales of oxygen and sulfur revisited. J Chem Phys 2015; 142:091102. [DOI: 10.1063/1.4913634] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Stanislav Komorovsky
- Centre for Theoretical and Computational Chemistry, University of Tromsø — The Arctic University of Norway, N-9037 Tromsø, Norway
| | - Michal Repisky
- Centre for Theoretical and Computational Chemistry, University of Tromsø — The Arctic University of Norway, N-9037 Tromsø, Norway
| | - Elena Malkin
- Centre for Theoretical and Computational Chemistry, University of Tromsø — The Arctic University of Norway, N-9037 Tromsø, Norway
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry, University of Tromsø — The Arctic University of Norway, N-9037 Tromsø, Norway
| | - Jürgen Gauss
- Institut für Physikalische Chemie, Johannes Gutenberg-Universität Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany
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114
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Maryasin B, Olbrich M, Trauner D, Ochsenfeld C. Calculated Nuclear Magnetic Resonance Spectra of Polytwistane and Related Hydrocarbon Nanorods. J Chem Theory Comput 2015; 11:1020-6. [DOI: 10.1021/ct5011505] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Boris Maryasin
- Department of Chemistry, University of Munich (LMU), and Munich Center for Integrated Protein Science (CIPSM), Butenandtstrasse 5-13, D-81377 Munich, Germany
| | - Martin Olbrich
- Department of Chemistry, University of Munich (LMU), and Munich Center for Integrated Protein Science (CIPSM), Butenandtstrasse 5-13, D-81377 Munich, Germany
| | - Dirk Trauner
- Department of Chemistry, University of Munich (LMU), and Munich Center for Integrated Protein Science (CIPSM), Butenandtstrasse 5-13, D-81377 Munich, Germany
| | - Christian Ochsenfeld
- Department of Chemistry, University of Munich (LMU), and Munich Center for Integrated Protein Science (CIPSM), Butenandtstrasse 5-13, D-81377 Munich, Germany
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115
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NAKAGAWA K. Calculation of NMR Shielding Constants with Optimized Numerical Basis Function. JOURNAL OF COMPUTER CHEMISTRY-JAPAN 2015. [DOI: 10.2477/jccj.2015-0025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Katsumi NAKAGAWA
- MO BASICS Research, 3-1-1-201 Hiyoshi-Honcho, Kohoku-ku, Yokohama, Kanagawa 223-0062 Japan
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116
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Reimann S, Ekström U, Stopkowicz S, Teale AM, Borgoo A, Helgaker T. The importance of current contributions to shielding constants in density-functional theory. Phys Chem Chem Phys 2015; 17:18834-42. [DOI: 10.1039/c5cp02682b] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The sources of error in the calculation of nuclear-magnetic-resonance shielding constants determined by density-functional theory are examined.
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Affiliation(s)
- Sarah Reimann
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
| | - Ulf Ekström
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
| | - Stella Stopkowicz
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
| | - Andrew M. Teale
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
| | - Alex Borgoo
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
| | - Trygve Helgaker
- Department of Chemistry
- Centre for Theoretical and Computational Chemistry
- University of Oslo
- Oslo N-0315
- Norway
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117
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Reid DM, Collins MA. Calculating nuclear magnetic resonance shieldings using systematic molecular fragmentation by annihilation. Phys Chem Chem Phys 2015; 17:5314-20. [DOI: 10.1039/c4cp05116e] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Systematic fragmentation accurately predicts theoretical chemical shieldings.
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Affiliation(s)
- David M. Reid
- Research School of Chemistry
- The Australian National University
- ACT
- Australia
| | - Michael A. Collins
- Research School of Chemistry
- The Australian National University
- ACT
- Australia
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118
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Alipour M. In search of the appropriate theoretically justified mixing coefficient in parameter-free hybrid functionals for computing the NMR parameters. RSC Adv 2015. [DOI: 10.1039/c4ra13186j] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The parameter-free hybrid density functionals, with theoretically justified mixing coefficients, are recommended to predict the NMR parameters.
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Affiliation(s)
- Mojtaba Alipour
- Department of Chemistry
- College of Sciences
- Shiraz University
- Shiraz
- Iran
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119
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Camacho Gonzalez J, Muñoz-Castro A. Alternation of aromatic–nonaromatic rings in belt-like structures. The behavior of [6.8]3cyclacene in magnetic fields. Phys Chem Chem Phys 2015; 17:17023-6. [DOI: 10.1039/c5cp02195b] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The magnetic response of [6.8]cyclacene suggests a characteristic behavior given by its confinement into a belt-like structure.
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Affiliation(s)
- J. Camacho Gonzalez
- Departamento de Estudios Pedagógicos
- Facultad de Filosofía y Humanidades
- Universidad de Chile
- Ñuñoa Santiago
- Chile
| | - A. Muñoz-Castro
- Facultad de Ingeniería
- Universidad Autonoma de Chile
- San Miguel
- Chile
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120
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Jaszuński M, Demissie TB, Ruud K. Spin-rotation and NMR shielding constants in XF molecules (X = B, Al, Ga, In, and Tl). J Phys Chem A 2014; 118:9588-95. [PMID: 25192304 DOI: 10.1021/jp507129y] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Accurate spin-rotation and absolute shielding constants in a series of XF molecules (X = (11)B, (27)Al, (69)Ga, (115)In, and (205)Tl) determined using high-level ab initio coupled-cluster and four-component relativistic density-functional theory (DFT) calculations are presented. The accuracy of the results is established by comparing the relativistically and vibrationally corrected calculated values with available experimental data; for spin-rotation and shielding constants for which no experimental data exist, we provide new and reliable values. For both properties, our results can be considered as reference values against which more approximate quantum-chemical methods can be benchmarked.
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Affiliation(s)
- Michał Jaszuński
- Institute of Organic Chemistry, Polish Academy of Sciences , Kasprzaka 44, 01-224 Warsaw, Poland
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121
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Theoretical prediction of structural, vibrational and NMR parameters of plastic optical fiber (POF) material precursors. Cis and trans perhydro- and perfluoro-2-methylene-4,5-dimethyl-1,3-dioxolanes. J Mol Graph Model 2014; 52:36-45. [DOI: 10.1016/j.jmgm.2014.06.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2014] [Revised: 05/14/2014] [Accepted: 06/17/2014] [Indexed: 11/18/2022]
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122
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Ruud K, Demissie TB, Jaszuński M. Ab initio and relativistic DFT study of spin–rotation and NMR shielding constants in XF6 molecules, X = S, Se, Te, Mo, and W. J Chem Phys 2014; 140:194308. [DOI: 10.1063/1.4875696] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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123
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Nozirov F, Kupka T, Stachów M. Theoretical prediction of nuclear magnetic shieldings and indirect spin-spin coupling constants in 1,1-, cis-, and trans-1,2-difluoroethylenes. J Chem Phys 2014; 140:144303. [DOI: 10.1063/1.4870396] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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124
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Xiao Y, Zhang Y, Liu W. New Experimental NMR Shielding Scales Mapped Relativistically from NSR: Theory and Application. J Chem Theory Comput 2014; 10:600-8. [PMID: 26580036 DOI: 10.1021/ct400950g] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The recently proposed relativistic mapping between nuclear magnetic resonance (NMR) shielding and nuclear spin-rotation (NSR) coupling tensors [J. Chem. Phys. 2013, 138, 134104] is employed to establish new experimental (more precisely, experimentally derived) absolute shielding constants for H and X in HX (X = F, Cl, Br, and I). The results are much more accurate than the old "experimental" values that were based on the well-known nonrelativistic mapping. The relativistic mapping is very robust in the sense that it is rather insensitive to the quality of one-particle basis sets and the treatment of electron correlation. Relativistic effects in the NSR coupling constants are also elucidated in depth.
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Affiliation(s)
- Yunlong Xiao
- Beijing National Laboratory for Molecular Sciences, Institute of Theoretical and Computational Chemistry, State Key Laboratory of Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, and Center for Computational Science and Engineering, Peking University , Beijing 100871, People's Republic of China
| | - Yong Zhang
- Beijing National Laboratory for Molecular Sciences, Institute of Theoretical and Computational Chemistry, State Key Laboratory of Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, and Center for Computational Science and Engineering, Peking University , Beijing 100871, People's Republic of China
| | - Wenjian Liu
- Beijing National Laboratory for Molecular Sciences, Institute of Theoretical and Computational Chemistry, State Key Laboratory of Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, and Center for Computational Science and Engineering, Peking University , Beijing 100871, People's Republic of China
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125
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Flaig D, Maurer M, Hanni M, Braunger K, Kick L, Thubauville M, Ochsenfeld C. Benchmarking Hydrogen and Carbon NMR Chemical Shifts at HF, DFT, and MP2 Levels. J Chem Theory Comput 2014; 10:572-8. [DOI: 10.1021/ct400780f] [Citation(s) in RCA: 126] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Denis Flaig
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Marina Maurer
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Matti Hanni
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Katharina Braunger
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Leonhard Kick
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Matthias Thubauville
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
| | - Christian Ochsenfeld
- Chair of Theoretical Chemistry,
Department of Chemistry, University of Munich (LMU), Butenandtstr.
7, D-81377 Munich, Germany
- Center for Integrated Protein
Science (CIPSM) at the Department of Chemistry, University of Munich (LMU), Butenandtstr. 5-13, D-81377 Munich, Germany
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126
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Tellgren EI, Teale AM, Furness JW, Lange KK, Ekström U, Helgaker T. Non-perturbative calculation of molecular magnetic properties within current-density functional theory. J Chem Phys 2014; 140:034101. [DOI: 10.1063/1.4861427] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
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127
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Valiev RR, Fliegl H, Sundholm D. The aromatic character of thienopyrrole-modified 20π-electron porphyrinoids. Phys Chem Chem Phys 2014; 16:11010-6. [DOI: 10.1039/c4cp00883a] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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128
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Helgaker T, Gauss J, Cazzoli G, Puzzarini C. 33S hyperfine interactions in H2S and SO2 and revision of the sulfur nuclear magnetic shielding scale. J Chem Phys 2013; 139:244308. [PMID: 24387371 DOI: 10.1063/1.4849177] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Using the Lamb-dip technique, the hyperfine structure in the rotational spectra of H2(33)S and (33)SO2 has been resolved and the corresponding parameters--that is, the sulfur quadrupole-coupling and spin-rotation tensors--were determined. The experimental parameters are in good agreement with results from high-level coupled-cluster calculations, provided that up to quadruple excitations are considered in the cluster operator, sufficiently large basis sets are used, and vibrational corrections are accounted for. The (33)S spin-rotation tensor for H2S has been used to establish a new sulfur nuclear magnetic shielding scale, combining the paramagnetic part of the shielding as obtained from the spin-rotation tensor with a calculated value for the diamagnetic part as well as computed vibrational and temperature corrections. The value of 716(5) ppm obtained in this way for the sulfur shielding of H2S is in good agreement with results from high-accuracy quantum-chemical calculations but leads to a shielding scale that is about 28 ppm lower than the one suggested previously in the literature, based on the (33)S spin-rotation constant of OCS.
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Affiliation(s)
- Trygve Helgaker
- Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, N-0315 Oslo, Norway
| | - Jürgen Gauss
- Institut für Physikalische Chemie, Universität Mainz, D-55099 Mainz, Germany
| | - Gabriele Cazzoli
- Dipartimento di Chimica "Giacomo Ciamician," Università di Bologna, Via Selmi 2, I-40126 Bologna, Italy
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician," Università di Bologna, Via Selmi 2, I-40126 Bologna, Italy
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129
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Jaszuński M, Repisky M, Demissie TB, Komorovsky S, Malkin E, Ruud K, Garbacz P, Jackowski K, Makulski W. Spin-rotation and NMR shielding constants in HCl. J Chem Phys 2013; 139:234302. [DOI: 10.1063/1.4840295] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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130
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Tellgren EI, Fliegl H. Non-perturbative treatment of molecules in linear magnetic fields: Calculation of anapole susceptibilities. J Chem Phys 2013; 139:164118. [DOI: 10.1063/1.4826578] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
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131
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Radula-Janik K, Kupka T, Ejsmont K, Daszkiewicz Z, Sauer SPA. Halogen effect on structure and 13C NMR chemical shift of 3,6-disubstituted-N-alkyl carbazoles. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2013; 51:630-5. [PMID: 23922027 DOI: 10.1002/mrc.3992] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2013] [Revised: 07/10/2013] [Accepted: 07/10/2013] [Indexed: 05/26/2023]
Abstract
Structures of selected 3,6-dihalogeno-N-alkyl carbazole derivatives were calculated at the B3LYP/6-311++G(3df,2pd) level of theory, and their (13) C nuclear magnetic resonance (NMR) isotropic shieldings were predicted using density functional theory (DFT). The model compounds contained 9H, N-methyl and N-ethyl derivatives. The relativistic effect of Br and I atoms on nuclear shieldings was modeled using the spin-orbit zeroth-order regular approximation (ZORA) method. Significant heavy atom shielding effects for the carbon atom directly bonded with Br and I were observed (~-10 and ~-30 ppm while the other carbon shifts were practically unaffected). The decreasing electronegativity of the halogen substituent (F, Cl, Br, and I) was reflected in both nonrelativistic and relativistic NMR results as decreased values of chemical shifts of carbon atoms attached to halogen (C3 and C6) leading to a strong sensitivity to halogen atom type at 3 and 6 positions of the carbazole ring. The predicted NMR data correctly reproduce the available experimental data for unsubstituted N-alkylcarbazoles.
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Affiliation(s)
- Klaudia Radula-Janik
- Faculty of Chemistry, Opole University, 48, Oleska Street, 45-052, Opole, Poland
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132
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Demissie TB, Repisky M, Komorovsky S, Isaksson J, Svendsen JS, Dodziuk H, Ruud K. Four-component relativistic chemical shift calculations of halogenated organic compounds. J PHYS ORG CHEM 2013. [DOI: 10.1002/poc.3157] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Taye B. Demissie
- Institute of Physical Chemistry; Polish Academy of Sciences; Kasprzaka 44/52 Warsaw Poland
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; N-9037 Tromsø Norway
| | - Michal Repisky
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; N-9037 Tromsø Norway
| | - Stanislav Komorovsky
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; N-9037 Tromsø Norway
| | - Johan Isaksson
- Centre for Research-based Innovation on Marine Bioactivities and Drug Discovery (MABCENT); University of Tromsø; N-9037 Tromsø Norway
| | - John S. Svendsen
- Centre for Research-based Innovation on Marine Bioactivities and Drug Discovery (MABCENT); University of Tromsø; N-9037 Tromsø Norway
| | - Helena Dodziuk
- Institute of Physical Chemistry; Polish Academy of Sciences; Kasprzaka 44/52 Warsaw Poland
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; N-9037 Tromsø Norway
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133
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Affiliation(s)
- Michał Jaszuński
- a Institute of Organic Chemistry , Polish Academy of Sciences , Warszawa , 01-224 , Kasprzaka 44, Poland
| | - Małgorzata Olejniczak
- b Faculty of Chemistry , University of Warsaw , Pasteura 1, Laboratoire de Chimie et Physique Quantiques (UMR 5626), CNRS and Université de Toulouse 3 (Paul Sabatier), 118 Route de Narbonne, F-31062 Toulouse, France, Warsaw , 02-093 , Poland
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134
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Cornaton Y, Franck O, Teale AM, Fromager E. Analysis of double-hybrid density functionals along the adiabatic connection. Mol Phys 2013. [DOI: 10.1080/00268976.2013.783640] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Yann Cornaton
- a Laboratoire de Chimie Quantique, Institut de Chimie , CNRS/Université de Strasbourg , Strasbourg , France
| | - Odile Franck
- a Laboratoire de Chimie Quantique, Institut de Chimie , CNRS/Université de Strasbourg , Strasbourg , France
| | - Andrew M. Teale
- b School of Chemistry , University of Nottingham , University Park, Nottingham , United Kingdom
- c Department of Chemistry, Centre for Theoretical and Computational Chemistry , University of Oslo , Blindern, Oslo , Norway
| | - Emmanuel Fromager
- a Laboratoire de Chimie Quantique, Institut de Chimie , CNRS/Université de Strasbourg , Strasbourg , France
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135
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Kaminský J, Buděšínský M, Taubert S, Bouř P, Straka M. Fullerene C70 characterization by 13C NMR and the importance of the solvent and dynamics in spectral simulations. Phys Chem Chem Phys 2013; 15:9223-30. [DOI: 10.1039/c3cp50657f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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