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Charry J, Tkatchenko A. van der Waals Radii of Free and Bonded Atoms from Hydrogen (Z = 1) to Oganesson (Z = 118). J Chem Theory Comput 2024; 20:7469-7478. [PMID: 39208255 PMCID: PMC11391583 DOI: 10.1021/acs.jctc.4c00784] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/04/2024]
Abstract
Reliable numerical values of van der Waals (vdW) radii are required for constructing empirical force fields, vdW-inclusive density functional, and quantum-chemical methods, as well as for implicit solvent models. However, multiple definitions exist for vdW radii, involving either equilibrium or the closest contact distances between free or bonded atoms within molecules or crystals. For the paradigmatic case of the hydrogen atom, its reported vdW radius fluctuates between 2.15 and 3.70 Bohr depending on the definition, leading to a high uncertainty in calculations and different conceptual interpretations of noncovalent interactions. In this work, we systematically review different definitions and methodologies to establish the free and bonded vdW radii for hydrogen, based on equilibrium vdW distances in noncovalently bonded molecules, enveloping electron density cutoffs, noncovalent positron bonds in hydrogen anion dimer, vacuum virtual photon cloud caused by the hydrogen atom, and atomic dipole polarizability. By doing so, we show that the vdW radius of the free hydrogen atom is 3.16 ± 0.06 Bohr. By employing the most general and elegant definition of atomic vdW radius as a function of the atomic polarizability, we tabulate consistent values of vdW radii for all atoms in the periodic table up to Z = 118.
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Affiliation(s)
- Jorge Charry
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
| | - Alexandre Tkatchenko
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg City, Luxembourg
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2
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Mota VC, Caridade PJSB, Varandas AJC, Galvão BRL. Quasiclassical Trajectory Study of the Si + SH Reaction on an Accurate Double Many-Body Expansion Potential Energy Surface. J Phys Chem A 2022; 126:3555-3568. [PMID: 35612827 DOI: 10.1021/acs.jpca.2c01633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
An accurate potential energy surface (PES) for the HSiS system based on MRCI+Q calculations extrapolated to the complete basis set limit is presented. Modeled with the double many-body expansion (DMBE) method, the PES provides an accurate description of the long-range interactions, including electrostatic and dispersion terms decaying as R-4, R-5, R-6, R-8, R-10 that are predicted from dipole moments, quadrupole moments, and dipolar polarizabilities, which are also calculated at the MRCI+Q level. The novel PES is then used in quasiclassical trajectory calculations to predict the rate coefficients of the Si + SH → SiS + H reaction, which has been shown to be a major source of the SiS in certain regions of the interstellar medium. An account of the zero-point energy leakage based on various nonactive models is also given. It is shown that the reaction is dominated by long-range forces, with the mechanism Si + SH → SiSH → SSiH → SiS + H being the most important one for all temperatures studied. Although SSiH corresponds to the global minimum of the PES, the contribution from the direct reaction Si + SH → SSiH → SiS + H is less than 0.5% for temperatures higher than 500 K. The rovibrational distributions of the products are calculated using the momentum Gaussian binning method and show that as the temperature is increased the average vibrational quantum number decreases while the rotational distribution spreads up to larger values.
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Affiliation(s)
- V C Mota
- Departamento de Física, Universidade Federal do Espírito Santo, 29075-910Vitória, Brazil
| | - P J S B Caridade
- Coimbra Chemistry Centre and Chemistry Department, University of Coimbra, 3004-535Coimbra, Portugal
| | - A J C Varandas
- Departamento de Física, Universidade Federal do Espírito Santo, 29075-910Vitória, Brazil.,Coimbra Chemistry Centre and Chemistry Department, University of Coimbra, 3004-535Coimbra, Portugal.,School of Physics and Physical Engineering, Qufu Normal University, Qufu273165, P. R. China
| | - B R L Galvão
- Centro Federal de Educação Tecnológica de Minas Gerais, CEFET-MG, Av. Amazonas 5253, 30421-169Belo Horizonte-MG, Brazil
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Mota VC, Galvão BRL, Coura DVB, Varandas AJC. Accurate Potential Energy Surface for Quartet State HN 2 and Interplay of N( 4S) + NH( X̃3Σ -) versus H + N 2( A3Σ u+) Reactions. J Phys Chem A 2020; 124:781-789. [PMID: 31922752 DOI: 10.1021/acs.jpca.9b09467] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A global potential energy surface for the lowest quartet state of HN2 is reported for the first time from accurate multireference ab initio calculations extrapolated to the complete basis set limit using the double many-body expansion method. All its stationary points are characterized, with the lowest quartet of HN2 predicted to have a bent global minimum 36 kcal mol-1 below the N(4S) + NH(X̃3Σ-) asymptote, from which it is barrierlessly achievable. The entire set of calculated ab initio points has been fitted for energies up to 1000 kcal mol-1 above the global minimum with an RMSD of 0.89 kcal mol-1, a gap comprising all identified stationary points. Special care is taken in modeling the involved long-range forces and cusps caused by crossing seams. The novel PES prompts for the calculation of rate constants for several unexplored reactions that are relevant for combustion, plasma, and atmospheric chemistry.
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Affiliation(s)
- V C Mota
- Departamento de Fı́sica , Universidade Federal do Espı́rito Santo , 29075-910 Vitória , Brazil
| | - B R L Galvão
- Departamento de Quı́mica , Centro Federal de Educação Tecnológica de Minas Gerais, CEFET-MG , Av. Amazonas 5253 , 30421-169 Belo Horizonte , Minas Gerais , Brazil
| | - D V B Coura
- Departamento de Fı́sica , Universidade Federal do Espı́rito Santo , 29075-910 Vitória , Brazil
| | - A J C Varandas
- School of Physics and Physical Engineering , Qufu Normal University , 273165 Qufu , China.,Coimbra Chemistry Center and Chemistry Department , University of Coimbra , 3004-535 Coimbra , Portugal
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Gonçalves CEM, Galvão BRL, Mota VC, Braga JP, Varandas AJC. Accurate Explicit-Correlation-MRCI-Based DMBE Potential-Energy Surface for Ground-State CNO. J Phys Chem A 2018; 122:4198-4207. [DOI: 10.1021/acs.jpca.8b01881] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- C. E. M. Gonçalves
- Departamento de Química, Universidade Federal de Minas Gerais, 31270-901, Belo Horizonte, Brazil
| | - B. R. L. Galvão
- Departamento de Química, Centro Federal de Educação Tecnológica de Minas Gerais, 30421-169, Belo Horizonte, Brazil
| | - V. C. Mota
- Departamento de Física, Universidade Federal do Espírito Santo, 29075-910, Vitória, Brazil
| | - J. P. Braga
- Departamento de Química, Universidade Federal de Minas Gerais, 31270-901, Belo Horizonte, Brazil
| | - A. J. C. Varandas
- School of Physics and Physical Engineering, Qufu Normal University, 273165 Qufu, China
- Department of Chemistry and Chemistry Centre,University of Coimbra, 3004-535, Coimbra, Portugal
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Rocha CMR, Varandas AJC. Accurate ab initio-based double many-body expansion potential energy surface for the adiabatic ground-state of the C3 radical including combined Jahn-Teller plus pseudo-Jahn-Teller interactions. J Chem Phys 2015; 143:074302. [DOI: 10.1063/1.4928434] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Affiliation(s)
- C. M. R. Rocha
- Departamento de Química, and Centro de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, and Centro de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Li J, Varandas AJC. Accurate double many-body expansion potential energy surface for the 21A′ state of N2O. J Chem Phys 2014; 141:084307. [DOI: 10.1063/1.4893951] [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
Affiliation(s)
- Jing Li
- Departamento de Química, Universidade de Coimbra 3004-535 Coimbra, Portugal
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Teixeira OBM, Mota VC, Garcia de la Vega JM, Varandas AJC. Single-Sheeted Double Many-Body Expansion Potential Energy Surface for Ground-State ClO2. J Phys Chem A 2014; 118:4851-62. [DOI: 10.1021/jp503744x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- O. B. M. Teixeira
- Departamento
de Química Física Aplicada, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - V. C. Mota
- Departamento
de Física, Universidade Federal do Espirito Santo, 29075-910 Vitória, Brazil
| | - J. M. Garcia de la Vega
- Departamento
de Química Física Aplicada, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - A. J. C. Varandas
- Departamento
de Física, Universidade Federal do Espirito Santo, 29075-910 Vitória, Brazil
- Centro de Química,
and Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Mota VC, Caridade PJSB, Varandas AJC. Ab Initio-Based Global Double Many-Body Expansion Potential Energy Surface for the First 2A″ Electronic State of NO2. J Phys Chem A 2012; 116:3023-34. [DOI: 10.1021/jp300031q] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- V. C. Mota
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | | | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Song YZ, Varandas AJC. Accurate Double Many-Body Expansion Potential Energy Surface for Ground-State HS2 Based on ab Initio Data Extrapolated to the Complete Basis Set Limit. J Phys Chem A 2011; 115:5274-83. [DOI: 10.1021/jp201980m] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Y. Z. Song
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Joseph S, Varandas AJC. Ab initio Based DMBE Potential Energy Surface for the Ground Electronic State of the C2H Molecule. J Phys Chem A 2010; 114:2655-64. [DOI: 10.1021/jp910269w] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- S. Joseph
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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11
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Galvão BRL, Varandas AJC. Accurate Double Many-Body Expansion Potential Energy Surface for N3(4A′′) from Correlation Scaled ab Initio Energies with Extrapolation to the Complete Basis Set Limit. J Phys Chem A 2009; 113:14424-30. [DOI: 10.1021/jp903719h] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- B. R. L. Galvão
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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12
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Song YZ, Varandas AJC. Accurate ab initio double many-body expansion potential energy surface for ground-state H2S by extrapolation to the complete basis set limit. J Chem Phys 2009; 130:134317. [DOI: 10.1063/1.3103268] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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13
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Joseph S, Varandas AJC. Accurate Double Many-Body Expansion Potential Energy Surface for the Lowest Singlet State of Methylene. J Phys Chem A 2009; 113:4175-83. [DOI: 10.1021/jp810600r] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- S. Joseph
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Mota VC, Varandas AJC. HN2(2A‘) Electronic Manifold. II. Ab Initio Based Double-Sheeted DMBE Potential Energy Surface via a Global Diabatization Angle. J Phys Chem A 2008; 112:3768-86. [DOI: 10.1021/jp710610d] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Vinícius C. Mota
- Departamento de Química, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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Accurate DMBE Potential Energy Surface For the N(2D) + H2(1Σ g + ) Reaction Using an Improved Switching Function Formalism. Theor Chem Acc 2006. [DOI: 10.1007/s00214-006-0092-6] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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16
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Poveda LA, Varandas AJC. Accurate Single-Valued Double Many-Body Expansion Potential Energy Surface for Ground-State HN2. J Phys Chem A 2003. [DOI: 10.1021/jp030571o] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- L. A. Poveda
- Departamento de Quımica, Universidade de Coimbra, 3004-535 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Quımica, Universidade de Coimbra, 3004-535 Coimbra, Portugal
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18
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Martínez-Núñez E, Varandas AJC. Single-Valued DMBE Potential Energy Surface for HSO: A Distributed n-Body Polynomial Approach. J Phys Chem A 2001. [DOI: 10.1021/jp0101460] [Citation(s) in RCA: 59] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- E. Martínez-Núñez
- Departamento de Química, Universidade de Coimbra, P-3049 Coimbra, Portugal
| | - A. J. C. Varandas
- Departamento de Química, Universidade de Coimbra, P-3049 Coimbra, Portugal
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19
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Varandas AJC, Rodrigues SPJ. Double many-body expansion potential energy surface for ground-state HCN based on realistic long range forces and accurateab initiocalculations. J Chem Phys 1997. [DOI: 10.1063/1.473864] [Citation(s) in RCA: 50] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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20
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Varandas AJC. Energy switching approach to potential surfaces: An accurate single‐valued function for the water molecule. J Chem Phys 1996. [DOI: 10.1063/1.473005] [Citation(s) in RCA: 102] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
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21
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Dipole polarizabilities and C6 dispersion coefficients for small atomic and molecular systems. Chem Phys Lett 1996. [DOI: 10.1016/0009-2614(96)00795-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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22
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Spelsberg D, Meyer W. Dynamic Multipole Polarizabilities of the Rare-Gas Atoms Ne, Ar, and Kr and Long-Range Interaction Coefficients of the Rare-Gas Atoms and with H2. ACTA ACUST UNITED AC 1996. [DOI: 10.1021/jp960065h] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Dirk Spelsberg
- Fachbereich Chemie, Universität Kaiserslautern, 67663 Kaiserslautern, Germany
| | - Wilfried Meyer
- Fachbereich Chemie, Universität Kaiserslautern, 67663 Kaiserslautern, Germany
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23
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Varandas A, Rodrigues S. Internuclear dependence of static dipole polarizability in diatomic molecules. Chem Phys Lett 1995. [DOI: 10.1016/0009-2614(95)00936-x] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Rubahn H, Slenczka A, Toennies JP. Observation of an anomalous increase in total cross sections with high vibrational excitation in the Li2 (v=0–21)+Na reactive system. J Chem Phys 1994. [DOI: 10.1063/1.467818] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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25
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Spelsberg D, Lorenz T, Meyer W. Dynamic multipole polarizabilities and long range interaction coefficients for the systems H, Li, Na, K, He, H−, H2, Li2, Na2, and K2. J Chem Phys 1993. [DOI: 10.1063/1.465663] [Citation(s) in RCA: 95] [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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26
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Rérat M, Caffarel M, Pouchan C. Dynamic polarizabilities and van der Waals coefficients of the 2 (1)S and 2 (3)S metastable states of helium. PHYSICAL REVIEW. A, ATOMIC, MOLECULAR, AND OPTICAL PHYSICS 1993; 48:161-165. [PMID: 9909584 DOI: 10.1103/physreva.48.161] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
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27
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Caffarel M, Rérat M, Pouchan C. Evaluating dynamic multipole polarizabilities and van der Waals dispersion coefficients of two-electron systems with a quantum Monte Carlo calculation: A comparison with some ab initio calculations. PHYSICAL REVIEW. A, ATOMIC, MOLECULAR, AND OPTICAL PHYSICS 1993; 47:3704-3717. [PMID: 9909375 DOI: 10.1103/physreva.47.3704] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
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28
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Thakkar AJ, Hettema H, Wormer PES. Abinitiodispersion coefficients for interactions involving rare‐gas atoms. J Chem Phys 1992. [DOI: 10.1063/1.463012] [Citation(s) in RCA: 125] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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29
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Varandas A. A new formulation of three-body dynamical correlation energy for explicit potential functions. Chem Phys Lett 1992. [DOI: 10.1016/0009-2614(92)86060-u] [Citation(s) in RCA: 50] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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30
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Thakkar AJ, Hu ZM, Chuaqui CE, Carley JS, LeRoy RJ. Angle and bond-length dependent C6 coefficients for H2 interacting with H, Li, Be and rare gas atoms. ACTA ACUST UNITED AC 1992. [DOI: 10.1007/bf01113130] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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