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Assessment of various density functionals for intermolecular N→Sn interactions: The test case of poly(trimethyltin cyanide). COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2014.10.028] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Kabanda MM, Ebenso EE. MP2, DFT and DFT-D study of the dimers of diazanaphthalenes: a comparative study of their structures, stabilisation and binding energies. MOLECULAR SIMULATION 2014. [DOI: 10.1080/08927022.2013.852191] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Luschtinetz R, Seifert G. Theoretical studies on the structural and electronic properties of π-stacked cyano-thiophene-based molecules. COMPUT THEOR CHEM 2013. [DOI: 10.1016/j.comptc.2013.08.024] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Zhong RL, Xu HL, Sun SL, Qiu YQ, Zhao L, Su ZM. Theoretical investigation on the 2e/12c bond and second hyperpolarizability of azaphenalenyl radical dimers: Strength and effect of dimerization. J Chem Phys 2013; 139:124314. [DOI: 10.1063/1.4822005] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Yang Y, Kennedy VO, Updegraph JB, Samas B, Macikenas D, Chaloux B, Miller JA, Van Goethem EM, Kenney ME. Long Directional Interactions (LDIs) in Oligomeric Cofacial Silicon Phthalocyanines and Other Oligomeric and Polymeric Cofacial Phthalocyanines. J Phys Chem A 2012; 116:8718-30. [DOI: 10.1021/jp3025182] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Yang Yang
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Vance O. Kennedy
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
- Department of Chemistry, Eastern Michigan University, Ypsilanti,
Michigan 48197, United States
| | - James B. Updegraph
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Brian Samas
- Pharmaceutical Sciences, Pfizer Global Research and Development, Groton, Connecticut 06340, United States
| | - Dainius Macikenas
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Brian Chaloux
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Jacob A. Miller
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Erika M. Van Goethem
- Department of Chemistry, Eastern Michigan University, Ypsilanti,
Michigan 48197, United States
| | - Malcolm E. Kenney
- Department of Chemistry, Case Western Reserve University, Cleveland, Ohio 44106, United States
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Haverkate LA, Zbiri M, Johnson MR, Deme B, Mulder FM, Kearley GJ. Conformation, defects, and dynamics of a discotic liquid crystal and their influence on charge transport. J Phys Chem B 2011; 115:13809-16. [PMID: 21977967 DOI: 10.1021/jp2068478] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Future applications of discotic liquid crystals (DLCs) in electronic devices depend on a marked improvement of their conductivity properties. We present a study of 2,3,6,7,10,11-hexakishexyloxytriphenylene (HAT6) and show how local conformation, structural defects, and thermal motions on the picosecond time scale strongly affect the efficient charge transport in DLCs. A direct and successful comparison of classical molecular dynamics (MD) simulations with both neutron powder diffraction and quasielastic neutron scattering (QENS) give a full insight into the structural and dynamical properties of HAT6. The local conformation of HAT6 molecules is characterized by a mutual rotation (twist) angle of about 37° and typically a mutual aromatic-core distance of 3.4 Å instead of the average distance of 3.65 Å usually quoted. We show that a considerable number of structural traps is present in HAT6, which persist at the picosecond time scale. We find that the high disorder in the mutual positions of the aromatic cores is an important factor contributing to the limited conductivity of HAT6 compared to larger DLCs.
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Affiliation(s)
- Lucas A Haverkate
- RID, Faculty of Applied Sciences, Delft University of Technology, Mekelweg 15, 2629JB Delft, The Netherlands
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Cheong PHY, Legault CY, Um JM, Çelebi-Ölçüm N, Houk KN. Quantum mechanical investigations of organocatalysis: mechanisms, reactivities, and selectivities. Chem Rev 2011; 111:5042-137. [PMID: 21707120 PMCID: PMC3154597 DOI: 10.1021/cr100212h] [Citation(s) in RCA: 429] [Impact Index Per Article: 33.0] [Reference Citation Analysis] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Paul Ha-Yeon Cheong
- Oregon State University, Department of Chemistry, 153 Gilbert Hall, Corvallis, OR 97331-4003 USA
| | - Claude Y. Legault
- University of Sherbrooke, Department of Chemistry, 2500 boul. de l’Université, local D1-3029, Sherbrooke (Québec) J1K 2R1 CANADA
| | - Joann M. Um
- University of California Los Angeles, Department of Chemistry and Biochemistry, 607 Charles E. Young Drive East, Los Angeles, CA 90095-1569 USA
| | - Nihan Çelebi-Ölçüm
- University of California Los Angeles, Department of Chemistry and Biochemistry, 607 Charles E. Young Drive East, Los Angeles, CA 90095-1569 USA
| | - K. N. Houk
- University of California Los Angeles, Department of Chemistry and Biochemistry, 607 Charles E. Young Drive East, Los Angeles, CA 90095-1569 USA
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Wu J, Walker VE, Boyd RJ. A theoretical study of the structure and conductivity of polycytosineacetylene. Chem Phys Lett 2011. [DOI: 10.1016/j.cplett.2011.03.018] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Simón L, Goodman JM. How reliable are DFT transition structures? Comparison of GGA, hybrid-meta-GGA and meta-GGA functionals. Org Biomol Chem 2010; 9:689-700. [PMID: 20976314 DOI: 10.1039/c0ob00477d] [Citation(s) in RCA: 184] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
There have been many comparisons of computational methods applied to ground states, but studies of organic reactions usually require calculations on transition states, and these provide a different test of the methods. We present calculations of the geometries of nineteen covalent-bond forming transition states using HF and twelve different functionals, including GGA, hybrid-GGA and hybrid meta-GGA approaches. For the calculation of the TS geometries, the results suggest that B3LYP is only slightly less accurate than newer, computationally more expensive methods, and is less sensitive to choice of integration grid. We conclude that the use of B3LYP and related functionals is still appropriate for many studies of organic reaction mechanisms.
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Affiliation(s)
- Luis Simón
- Facultad de Ciencias Químicas, Universidad de Salamanca, Plaza de los Caídos 1-5, Salamanca, E37004, Spain.
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Kupka T, Stachów M, Nieradka M, Kaminsky J, Pluta T. Convergence of Nuclear Magnetic Shieldings in the Kohn-Sham Limit for Several Small Molecules. J Chem Theory Comput 2010; 6:1580-9. [PMID: 26615692 DOI: 10.1021/ct100109j] [Citation(s) in RCA: 99] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Convergence patterns and limiting values of isotropic nuclear magnetic shieldings were studied for several small molecules (N2, CO, CO2, NH3, CH4, C2H2, C2H4, C2H6, and C6H6) in the Kohn-Sham limit. Individual results of calculations using dedicated families of Jensen's basis sets (pcS-n and pcJ-n) were fitted toward the complete basis set limit (CBS) using a simple two-parameter formula. Several density functionals were used; calculated vibrational corrections (ZPV) applied; and, for comparison purposes, similar calculations performed using RHF, MP2, SOPPA, SOPPA(CCSD), and CCSD(T) methods and additionally, the aug-cc-pVTZ-J basis set. Finally, the CBS estimated results were critically compared with earlier reported literature data and experimental results. Among 42 studied DFT methods, the KTn and "pure" functionals produced the most accurate heavy atom isotropic nuclear shieldings.
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Affiliation(s)
- Teobald Kupka
- University of Opole, Faculty of Chemistry, Poland, Department of Molecular Spectroscopy, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic, and University of Silesia, Institute of Chemistry, Katowice, Poland
| | - Michał Stachów
- University of Opole, Faculty of Chemistry, Poland, Department of Molecular Spectroscopy, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic, and University of Silesia, Institute of Chemistry, Katowice, Poland
| | - Marzena Nieradka
- University of Opole, Faculty of Chemistry, Poland, Department of Molecular Spectroscopy, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic, and University of Silesia, Institute of Chemistry, Katowice, Poland
| | - Jakub Kaminsky
- University of Opole, Faculty of Chemistry, Poland, Department of Molecular Spectroscopy, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic, and University of Silesia, Institute of Chemistry, Katowice, Poland
| | - Tadeusz Pluta
- University of Opole, Faculty of Chemistry, Poland, Department of Molecular Spectroscopy, Institute of Organic Chemistry and Biochemistry, Prague, Czech Republic, and University of Silesia, Institute of Chemistry, Katowice, Poland
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Kupka T. H2O, H2, HF, F2 and F2O nuclear magnetic shielding constants and indirect nuclear spin-spin coupling constants (SSCCs) in the BHandH/pcJ-n and BHandH/XZP Kohn-Sham limits. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2009; 47:959-970. [PMID: 19681101 DOI: 10.1002/mrc.2500] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Good performance of segmented contracted basis sets XZP, where X = D, T, Q and 5, for obtaining H(2)O, H(2), HF, F(2) and F(2)O nuclear isotropic shielding constants in the BHandH Kohn-Sham basis set limit was shown. The results of two- and three-parameter complete basis set limit extrapolation schemes were compared with experimental results, earlier literature data and benchmark ab initio results. Similar convergence patterns of shieldings obtained from calculations using general purpose XZP basis sets and from polarization-consistent basis sets pcS-n and pcJ-n, where n = 0, 1, 2, 3 and 4, designed to accurately predict magnetic properties were observed. On the contrary, the SSCCs were more sensitive to the XZP basis set size and generally less accurate than those estimated using pcJ-n basis set family. The BHandH density functional markedly outperforms B3LYP method in predicting heavy atom shieldings and SSCCs values in the studied systems.
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Affiliation(s)
- Teobald Kupka
- Department of Chemistry, University of Opole, 48, Oleska Street, 45-052 Opole, Poland.
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Biczysko M, Panek P, Barone V. Toward spectroscopic studies of biologically relevant systems: Vibrational spectrum of adenine as a test case for performances of long-range/dispersion corrected density functionals. Chem Phys Lett 2009. [DOI: 10.1016/j.cplett.2009.05.030] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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