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Volumn 20, Issue 7, 2014, Pages

Spherical tensor multipolar electrostatics and smooth particle mesh Ewald summation: A theoretical study

Author keywords

Electrostatics; Ewald summation; Force field; Molecular dynamics; Multipole moments; Smooth particle mesh Ewald; Spherical harmonics

Indexed keywords

ARTICLE; CHEMICAL ENVIRONMENT; MACHINE LEARNING; MOLECULAR DYNAMICS; MOLECULAR MECHANICS; PRIORITY JOURNAL; SMOOTH PARTICLE MESH EWALD SUMMATION; STATIC ELECTRICITY; THEORETICAL STUDY;

EID: 84902905145     PISSN: 16102940     EISSN: 09485023     Source Type: Journal    
DOI: 10.1007/s00894-014-2256-y     Document Type: Article
Times cited : (4)

References (48)
  • 1
    • 84977266737 scopus 로고
    • Die Berechnung optischer und elektrostatischer Gitterpotentiale
    • Ewald PP (1921) Die Berechnung optischer und elektrostatischer Gitterpotentiale. Annalen der Physik 369:253-287
    • (1921) Annalen der Physik , vol.369 , pp. 253-287
    • Ewald, P.P.1
  • 2
    • 0030163950 scopus 로고    scopus 로고
    • Ewald summation techniques in perspective: A survey
    • Toukmaji AY, Board Jr JA (1996) Ewald summation techniques in perspective: a survey. Comput Phys Commun 95:73-92
    • (1996) Comput Phys Commun , vol.95 , pp. 73-92
    • Toukmaji, A.Y.1    Board Jr., J.A.2
  • 3
    • 0000115003 scopus 로고
    • A local reaction field method for fast evaluation of long-range electrostatic interactions in molecular simulations
    • Lee FS, Warshel A (1992) A local reaction field method for fast evaluation of long-range electrostatic interactions in molecular simulations. J Chem Phys 97:3100-3107
    • (1992) J Chem Phys , vol.97 , pp. 3100-3107
    • Lee, F.S.1    Warshel, A.2
  • 4
    • 33745299454 scopus 로고    scopus 로고
    • Is the Ewald summation still necessary? Pairwise alternatives to the accepted standard for long-range electrostatics
    • Fennell CJ, Gezelter JD (2006) Is the Ewald summation still necessary? Pairwise alternatives to the accepted standard for long-range electrostatics. J Chem Phys 124:234104
    • (2006) J Chem Phys , vol.124 , pp. 234104
    • Fennell, C.J.1    Gezelter, J.D.2
  • 6
    • 33744994616 scopus 로고
    • The fast Fourier Poisson method for calculating Ewald sums
    • York D, Yang W (1994) The fast Fourier Poisson method for calculating Ewald sums. J Chem Phys 101: 3298
    • (1994) J Chem Phys , vol.101 , pp. 3298
    • York, D.1    Yang, W.2
  • 7
    • 0007147966 scopus 로고
    • An optimized ewald method for long-ranged potentials
    • DOI 10.1006/jcph.1994.1205
    • Rajagopal G, Needs RJ (1994) An optimized Ewald method for long-ranged potentials. J Comput Phys 115:399-405 (Pubitemid 124012864)
    • (1994) Journal of Computational Physics , vol.115 , Issue.2 , pp. 399-405
    • Rajagopal, G.1
  • 8
    • 0001280236 scopus 로고
    • The extended Ewald method: A general treatment of long-range electrostatic interactions in microscopic simulations
    • Kuwajima S, Warshel A (1988) The extended Ewald method: A general treatment of long-range electrostatic interactions in microscopic simulations. J Chem Phys 89:3751
    • (1988) J Chem Phys , vol.89 , pp. 3751
    • Kuwajima, S.1    Warshel, A.2
  • 10
    • 0033104039 scopus 로고    scopus 로고
    • New tricks for modelers from the crystallography toolkit: The particle mesh Ewald algorithm and its use in nucleic acid simulations
    • DOI 10.1016/S0969-2126(99)80033-1
    • Darden T, Perera L, Li L, Pedersen L (1999) New tricks for modelers from the crystallography toolkit: the particle mesh Ewald algorithm and its use in nucleic acid simulations. Structure 7:R55-R60 (Pubitemid 29159682)
    • (1999) Structure , vol.7 , Issue.3
    • Darden, T.1    Perera, L.2    Li, L.3    Lee, P.4
  • 12
    • 36649010414 scopus 로고    scopus 로고
    • Anisotropic polarizable molecular mechanics studies of inter- and intramolecular interactions and ligand-macromolecule complexes. A bottom-up strategy
    • Gresh N, Cisneros GA, Darden TA, Piquemal J-P (2007) Anisotropic polarizable molecular mechanics studies of inter- and intramolecular interactions and ligand-macromolecule complexes. A bottom-up strategy. J Chem Theory Comput 3:1960-1986
    • (2007) J Chem Theory Comput , vol.3 , pp. 1960-1986
    • Gresh, N.1    Cisneros, G.A.2    Darden, T.A.3    Piquemal, J.-P.4
  • 13
    • 84872246004 scopus 로고    scopus 로고
    • New insights in atom-atom interactions for future drug design
    • Popelier PLA (2012) New insights in atom-atom interactions for future drug design. Curr Topics Med Chem 12:1924-1934
    • (2012) Curr Topics Med Chem , vol.12 , pp. 1924-1934
    • Popelier, P.L.A.1
  • 15
    • 0001735019 scopus 로고    scopus 로고
    • Ewald summation and reaction field methods for potentials with atomic charges, dipoles, and polarizabilities
    • Nymand TM, Linse P (2000) Ewald summation and reaction field methods for potentials with atomic charges, dipoles, and polarizabilities. J Chem Phys 112:6152-6160
    • (2000) J Chem Phys , vol.112 , pp. 6152-6160
    • Nymand, T.M.1    Linse, P.2
  • 16
    • 0142211229 scopus 로고    scopus 로고
    • Ewald summation of electrostatic multipole interactions up to the quadrupolar level
    • Aguado As, Madden PA (2003) Ewald summation of electrostatic multipole interactions up to the quadrupolar level. J Chem Phys 119: 7471
    • (2003) J Chem Phys , vol.119 , pp. 7471
    • As, A.1    Madden, P.A.2
  • 17
    • 50249094584 scopus 로고    scopus 로고
    • Notes on "Ewald summation of electrostatic multipole interactions up to quadrupolar level" [J Chem Phys 119: 7471 (2003)]
    • 074102-074104
    • Laino T, Hutter J (2008) Notes on "Ewald summation of electrostatic multipole interactions up to quadrupolar level" [J Chem Phys 119: 7471 (2003)]. J Chem Phys 129: 074102-074102-074104
    • (2008) J Chem Phys , vol.129 , pp. 074102
    • Laino, T.1    Hutter, J.2
  • 18
    • 0942288583 scopus 로고    scopus 로고
    • Towards an accurate representation of electrostatics in classical force fields: Efficient implementation of multipolar interactions in biomolecular simulations
    • Sagui C, Pedersen LG, Darden TA (2004) Towards an accurate representation of electrostatics in classical force fields: efficient implementation of multipolar interactions in biomolecular simulations. J Chem Phys 120:73-87
    • (2004) J Chem Phys , vol.120 , pp. 73-87
    • Sagui, C.1    Pedersen, L.G.2    Darden, T.A.3
  • 19
    • 79959465189 scopus 로고    scopus 로고
    • Some comments and corrections regarding the calculation of electrostatic potential derivatives using the Ewald summation technique
    • 224104-224105
    • Stenhammar J, Trulsson M, Linse P (2011) Some comments and corrections regarding the calculation of electrostatic potential derivatives using the Ewald summation technique. J Chem Phys 134: 224104-224104-224105
    • (2011) J Chem Phys , vol.134 , pp. 224104
    • Stenhammar, J.1    Trulsson, M.2    Linse, P.3
  • 20
    • 52149095877 scopus 로고    scopus 로고
    • DL-MULTI - A molecular dynamics program to use distributed multipole electrostatic models to simulate the dynamics of organic crystals
    • Leslie M (2008) DL-MULTI - A molecular dynamics program to use distributed multipole electrostatic models to simulate the dynamics of organic crystals. Mol Phys 106:1567-1578
    • (2008) Mol Phys , vol.106 , pp. 1567-1578
    • Leslie, M.1
  • 21
    • 84904856129 scopus 로고    scopus 로고
    • Last accessed 31st March 2014
    • Program DL-MULTI, http://www.stfc.ac.uk/cse/resources/pdf/userman-multi2. 13.pdf Last accessed 31st March 2014.
    • Program DL-MULTI
  • 24
    • 67649770453 scopus 로고    scopus 로고
    • Geometrically faithful homeomorphisms between the electron density and the bare nuclear potential
    • Popelier PLA, Brémond ÉAG (2009) Geometrically faithful homeomorphisms between the electron density and the bare nuclear potential. Int J Quant Chem 109:2542-2553
    • (2009) Int J Quant Chem , vol.109 , pp. 2542-2553
    • Popelier, P.L.A.1    Brémond, É.2
  • 25
    • 0037058461 scopus 로고    scopus 로고
    • Improved convergence of the 'atoms in molecules' multipole expansion of electrostatic interaction
    • DOI 10.1080/00268970210152773
    • Joubert L, Popelier PLA (2002) Improved convergence of the atoms in molecules multipole expansion of electrostatic interaction. Molec Phys 100:3357-3365 (Pubitemid 35446112)
    • (2002) Molecular Physics , vol.100 , Issue.21 , pp. 3357-3365
    • Joubert, L.1    Popelier, P.L.A.2
  • 26
    • 0034622742 scopus 로고    scopus 로고
    • Convergence of the multipole expansion for electrostatic potentials of finite topological atoms
    • Kosov DS, Popelier PLA (2000) Convergence of the multipole expansion for electrostatic potentials of finite topological atoms. J Chem Phys 113:3969-3974
    • (2000) J Chem Phys , vol.113 , pp. 3969-3974
    • Kosov, D.S.1    Popelier, P.L.A.2
  • 27
    • 49749130262 scopus 로고    scopus 로고
    • Properties and 3D structure of liquid water: A perspective from a high-rank multipolar electrostatic potential
    • Liem SY, Popelier PLA (2008) Properties and 3D structure of liquid water: a perspective from a high-rank multipolar electrostatic potential. J Chem Theory Comp 4:353-365
    • (2008) J Chem Theory Comp , vol.4 , pp. 353-365
    • Liem, S.Y.1    Popelier, P.L.A.2
  • 28
    • 4544338888 scopus 로고    scopus 로고
    • Simulation of liquid water using a high rank quantum topological electrostatic potential
    • Liem SY, Popelier PLA, Leslie M (2004) Simulation of liquid water using a high rank quantum topological electrostatic potential Int. J Quantum Chem 99:685-694
    • (2004) Int. J Quantum Chem , vol.99 , pp. 685-694
    • Liem, S.Y.1    Popelier, P.L.A.2    Leslie, M.3
  • 29
    • 78649749305 scopus 로고    scopus 로고
    • Simulation of liquid imidazole using a high-rank quantum topological electrostatic potential
    • Shaik MS, Liem SY, Yuan Y, Popelier PLA (2010) Simulation of liquid imidazole using a high-rank quantum topological electrostatic potential. Phys Chem Chem Phys 12:15040-15055
    • (2010) Phys Chem Chem Phys , vol.12 , pp. 15040-15055
    • Shaik, M.S.1    Liem, S.Y.2    Yuan, Y.3    Popelier, P.L.A.4
  • 30
    • 0042882127 scopus 로고    scopus 로고
    • High rank quantum topological electrostatic potential: Molecular dynamics simulation of liquid HF
    • Liem S, Popelier PLA (2003) High rank quantum topological electrostatic potential: molecular dynamics simulation of liquid HF. J Chem Phys 119:4560-4566
    • (2003) J Chem Phys , vol.119 , pp. 4560-4566
    • Liem, S.1    Popelier, P.L.A.2
  • 31
    • 80053422148 scopus 로고    scopus 로고
    • Aqueous imidazole solutions: A structural perspective from simulations with high-rank electrostatic multipole moments
    • Liem SY, Shaik MS, Popelier PLA (2011) Aqueous imidazole solutions: a structural perspective from simulations with high-rank electrostatic multipole moments. J Phys Chem B 115:11389-11398
    • (2011) J Phys Chem B , vol.115 , pp. 11389-11398
    • Liem, S.Y.1    Shaik, M.S.2    Popelier, P.L.A.3
  • 32
    • 84879554295 scopus 로고    scopus 로고
    • Accuracy and tractability of a Kriging model of intramolecular polarizable multipolar electrostatics and its application to histidine
    • Kandathil SM, Fletcher TL, Yuan Y, Knowles J, Popelier PLA (2013) Accuracy and tractability of a Kriging model of intramolecular polarizable multipolar electrostatics and its application to histidine. J Comput Chem 34:1850-1861
    • (2013) J Comput Chem , vol.34 , pp. 1850-1861
    • Kandathil, S.M.1    Fletcher, T.L.2    Yuan, Y.3    Knowles, J.4    Popelier, P.L.A.5
  • 33
    • 68949154402 scopus 로고    scopus 로고
    • Optimal construction of a fast and accurate polarisable water potential based on multipole moments trained by machine learning
    • Handley CM, Hawe GI, Kell DB, Popelier PLA (2009) Optimal construction of a fast and accurate polarisable water potential based on multipole moments trained by machine learning. Phys Chem Chem Phys 11:6365-6376
    • (2009) Phys Chem Chem Phys , vol.11 , pp. 6365-6376
    • Handley, C.M.1    Hawe, G.I.2    Kell, D.B.3    Popelier, P.L.A.4
  • 34
    • 0001475763 scopus 로고
    • Distributed multipole analysis, or how to describe a molecular charge-distribution
    • Stone AJ (1981) Distributed multipole analysis, or how to describe a molecular charge-distribution. Chem Phys Lett 83:233-239
    • (1981) Chem Phys Lett , vol.83 , pp. 233-239
    • Stone, A.J.1
  • 35
    • 0011057301 scopus 로고
    • The exact multicenter multipolar part of a molecular charge distribution and its simplified representations
    • Vigne-Maeder F, Claverie P (1988) The exact multicenter multipolar part of a molecular charge distribution and its simplified representations. J Chem Phys 88:4934-4948
    • (1988) J Chem Phys , vol.88 , pp. 4934-4948
    • Vigne-Maeder, F.1    Claverie, P.2
  • 36
    • 33745416069 scopus 로고    scopus 로고
    • A molecular energy decomposition scheme for atoms in molecules J
    • Francisco E, Pendas AM, Blanco MA (2006) A molecular energy decomposition scheme for atoms in molecules J. Chem Theor Comp 2:90-102
    • (2006) Chem Theor Comp , vol.2 , pp. 90-102
    • Francisco, E.1    Pendas, A.M.2    Blanco, M.A.3
  • 38
    • 84947640108 scopus 로고
    • Explicit formulae for the electrostatic energy, forces and torques between a pair of molecules of arbitrary symmetry
    • Price SL, Stone AJ, Alderton M (1984) Explicit formulae for the electrostatic energy, forces and torques between a pair of molecules of arbitrary symmetry. Mol Phys 52:987-1001
    • (1984) Mol Phys , vol.52 , pp. 987-1001
    • Price, S.L.1    Stone, A.J.2    Alderton, M.3
  • 39
    • 84856859897 scopus 로고    scopus 로고
    • Polarisable multipolar electrostatics from the machine learning method Kriging: An application to alanine
    • Mills MJL, Popelier PLA (2012) Polarisable multipolar electrostatics from the machine learning method Kriging: an application to alanine. Theor Chem Acc 131:1137-1153
    • (2012) Theor Chem Acc , vol.131 , pp. 1137-1153
    • Mills, M.J.L.1    Popelier, P.L.A.2
  • 40
    • 80855127192 scopus 로고    scopus 로고
    • Intramolecular polarisable multipolar electrostatics from the machine learning method Kriging
    • Mills MJL, Popelier PLA (2011) Intramolecular polarisable multipolar electrostatics from the machine learning method Kriging. Comput Theor Chem 975:42-51
    • (2011) Comput Theor Chem , vol.975 , pp. 42-51
    • Mills, M.J.L.1    Popelier, P.L.A.2
  • 41
    • 84885130414 scopus 로고    scopus 로고
    • Unified approach to multipolar polarisation and charge transfer for ions: Microhydrated Na+
    • Mills MJL, Hawe GI, Handley CM, Popelier PLA (2013) Unified approach to multipolar polarisation and charge transfer for ions: microhydrated Na+PhysChemChemPhys 15: 18249-18261
    • (2013) PhysChemChemPhys , vol.15 , pp. 18249-18261
    • Mills, M.J.L.1    Hawe, G.I.2    Handley, C.M.3    Popelier, P.L.A.4
  • 42
    • 0000203611 scopus 로고
    • On the electrostatic potential in crystalline systems where the charge density is expanded in Gaussian functions
    • Saunders VR, Freyria-Fava C, Dovesi R, Salasco L, Roetti C (1992) On the electrostatic potential in crystalline systems where the charge density is expanded in Gaussian functions. Mol Phys 77:629-665
    • (1992) Mol Phys , vol.77 , pp. 629-665
    • Saunders, V.R.1    Freyria-Fava, C.2    Dovesi, R.3    Salasco, L.4    Roetti, C.5
  • 43
    • 0001762760 scopus 로고
    • Properties of the regular and irregular solid harmonics
    • doi:10.1088/0305-4470/10/8/004
    • Tough RJA, Stone AJ (1977) Properties of the regular and irregular solid harmonics. J Phys A Math Gen 10:1261 doi:10.1088/0305-4470/10/8/004
    • (1977) J Phys a Math Gen , vol.10 , pp. 1261
    • Tough, R.J.A.1    Stone, A.J.2
  • 44
    • 84904856130 scopus 로고    scopus 로고
    • personal communication
    • Bush I personal communication
    • Bush, I.1
  • 45
    • 0030603952 scopus 로고    scopus 로고
    • Recurrence relations for the direct calculation of spherical multipole interaction tensors and Coulomb-type interaction energies
    • Hättig C (1996) Recurrence relations for the direct calculation of spherical multipole interaction tensors and Coulomb-type interaction energies. Chem Phys Lett 260:341-351
    • (1996) Chem Phys Lett , vol.260 , pp. 341-351
    • Hättig, C.1
  • 46
    • 0000835551 scopus 로고
    • Spherical tensor theory of long-range intermolecular forces
    • Stone AJ, Tough RJA (1984) Spherical tensor theory of long-range intermolecular forces. Chem Phys Lett 110:123-129
    • (1984) Chem Phys Lett , vol.110 , pp. 123-129
    • Stone, A.J.1    Tough, R.J.A.2
  • 47
    • 0038707862 scopus 로고    scopus 로고
    • Intermolecular interaction energies by topologically partitioned electric properties II. Dispersion energies in one-centre and multicentre multipole expansions
    • Haettig C, Jansen G, Hess BA, Angyan JG (1997) Intermolecular interaction energies by topologically partitioned electric properties. II. Dispersion energies in one-centre and multicentre multipole expansions. Mol Phys 91:145-160 (Pubitemid 127474835)
    • (1997) Molecular Physics , vol.91 , Issue.1 , pp. 145-160
    • Hattig, C.1    Jansen, G.2    Hess, B.A.3    Angyan, J.G.4
  • 48
    • 0030124893 scopus 로고    scopus 로고
    • Rotation matrices for real spherical harmonies. Direct determination by recursion
    • Ivanic J, Ruedenberg K (1996) Rotation matrices for real spherical harmonics. Direct determination by recursion. J Phys Chem 100: 6342-6347 (Pubitemid 126834447)
    • (1996) Journal of Physical Chemistry , vol.100 , Issue.15 , pp. 6342-6347
    • Ivanic, J.1    Ruedenberg, K.2


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