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QMCF MD Simulations of Composite Solutes

QMCF MD Simulations of Composite Solutes

Bernd-Michael Rode (ORCID: )
  • Grant DOI 10.55776/P18429
  • Funding program Principal Investigator Projects
  • Status ended
  • Start July 1, 2006
  • End June 30, 2011
  • Funding amount € 257,418
  • Project website

Disciplines

Chemistry (100%)

Keywords

    Molecular Dynamics, Quantum Mechanics, Simulations, Solvation, Metal Complexes

Abstract Final report

In the past decade, ab initio QM/MM molecular dynamics simulations, where the chemically most relevant subregion of the system is treated at Hartree-Fock or even higher level, while the remaining system is described by ab initio generated 2- and 3-body potential functions, have proven a most successful tool to reveal the structural details and the ultrafast dynamics of pure liquids and ions solvated in these liquids. Numerous properties of solvated species hardly accessible by contemporary experimental methods have been evaluated with the help of such simulations. The application of this method has its intrinsic limits, however, when more composite solutes, e.g. complexes with various ligands, become the focus of interest, as the construction of the necessary 2- and 3- body interaction potential energy surfaces and their subsequent fitting to analytical functions turns into a most tedious and sometimes even ambiguous procedure. A new simulation method recently developed by the applicant, the `QMCF MD` approach, overcomes this difficulty and allows ab initio simulations of solvated systems without the need of any such potential functions except those for solvent-solvent interactions. The basis of this method is a sufficiently large quantum mechanical (QM) region including the solute plus a full solvation layer, a large outer solvent box described classically (MM), but also incorporated as a perturbation (charge field, CF) into the QM Hamiltonian, and the explicit consideration of the fluctuating charges in the QM region in the evaluation of interactions between QM region and MM region. In the present project, this method should be further developed and applied to numerous composite solutes difficult to access by conventional QM/MM simulations. These solutes will rank from composite ions such as TiO2+ (resp. Ti(OH)2 2+ ), ClO4 - and Hg2 2+ to metal ion - ligand complexes of the MLn type, L being ligands such as Cl - , CN - , CO, NO or simple chelate formers, or a mixture of such ligands. These applications are expected to open the way to accurate simulations of more complex model systems of biologically relevant molecules such as the active centres of metalloenzymes, and thus to the evaluation of structure and, in particular, the fast dynamics of such systems in the aqueous environment of organisms

A large number of publications have appeared in international scientific journals of high impact, and 3 invited book contributions bring the total number of publications achieved in this project to 78 (without posters, Ph.D. And M.Sc. Theses). Further publications are submitted or in preparation. Numerous international visitors have shown much interest in the ongoing projects, and their visits have served to continue existing or start new co-operations. In this context a very valuable extension of the project work is seen in the co-operation with one of the most renowned experimental groups studying ions in solution, the group of Prof. Ingmar Persson in Uppsala/Sweden,and a cooperation with Prof. Enriques Sanchez-Marcos` group at the University of Sevilla/Spain. The work in the project has covered a wide range of hydrated metal ions from all parts of the periodic system of elements. It could also be shown that the new methodology developed in this project is capable of treating electronic excitation of the ions in solution, opening an access to realistic UV/VIS spectra of these ions. Further, the applicability of the method to treat solvation of neutral molecules and anions with weak solvent binding through H bonds has been demonstrated, and ultrafast dynamics of hydrolysing systems were also shown to be treatable. A large number of project coworkers have obtained their M.Sc. and/or Ph.D. Degree as a result of their thesis work within this project. The results of this project could be presented in several international conferences in the form of invited plenary and session lectures and posters.

Research institution(s)
  • Universität Innsbruck - 100%

Research Output

  • 681 Citations
  • 27 Publications
Publications
  • 2008
    Title Molecular Dynamics Simulation Methods including Quantum Effects
    DOI 10.1007/978-1-4020-8270-2_10
    Type Book Chapter
    Author Hofer T
    Publisher Springer Nature
    Pages 247-278
  • 2008
    Title Quantum mechanical simulation studies of molecular vibrations and dynamics of oxo-anions in water
    DOI 10.1016/j.chemphys.2008.02.045
    Type Journal Article
    Author Pribil A
    Journal Chemical Physics
    Pages 182-185
  • 2012
    Title Hydration of trivalent lanthanum revisited – An ab initio QMCF-MD approach
    DOI 10.1016/j.cplett.2012.03.065
    Type Journal Article
    Author Lutz O
    Journal Chemical Physics Letters
    Pages 50-54
    Link Publication
  • 2011
    Title Carbon dioxide in aqueous environment—A quantum mechanical charge field molecular dynamics study
    DOI 10.1002/qua.22640
    Type Journal Article
    Author Moin S
    Journal International Journal of Quantum Chemistry
    Pages 1370-1378
  • 2010
    Title Structural and Dynamic Aspects of Hydration of HAsO4 -2: An ab initio QMCF MD Simulation
    DOI 10.1021/jp911860y
    Type Journal Article
    Author Bhattacharjee A
    Journal The Journal of Physical Chemistry B
    Pages 3921-3926
  • 2010
    Title QM/MM MD Simulations of Iodide Ion (I-) in Aqueous Solution: A Delicate Balance between Ion-Water and Water-Water H-Bond Interactions
    DOI 10.1021/jp910435d
    Type Journal Article
    Author Tongraar A
    Journal The Journal of Physical Chemistry A
    Pages 4334-4339
  • 2010
    Title Determination of Structure and Dynamics of the Solvated Bisulfide (HS-) Ion by ab Initio QMCF Molecular Dynamics
    DOI 10.1021/jp104856q
    Type Journal Article
    Author Kritayakornupong C
    Journal The Journal of Physical Chemistry B
    Pages 12883-12887
  • 2010
    Title Structural and Dynamical Properties and Vibrational Spectra of Bisulfate Ion in Water: A Study by Ab Initio Quantum Mechanical Charge Field Molecular Dynamics
    DOI 10.1021/jp105181n
    Type Journal Article
    Author Vchirawongkwin V
    Journal The Journal of Physical Chemistry B
    Pages 11561-11569
  • 2010
    Title QM/MM Dynamics of CH3COO--Water Hydrogen Bonds in Aqueous Solution
    DOI 10.1021/jp105671f
    Type Journal Article
    Author Payaka A
    Journal The Journal of Physical Chemistry A
    Pages 10443-10453
  • 2010
    Title Structural and Dynamical Aspects of the Unsymmetric Hydration of Sb(III): An ab initio Quantum Mechanical Charge Field Molecular Dynamics Simulation
    DOI 10.1021/ic901737y
    Type Journal Article
    Author Lim L
    Journal Inorganic Chemistry
    Pages 2132-2140
  • 2010
    Title Structure and Dynamics of the Chromate Ion in Aqueous Solution. An ab Initio QMCF-MD Simulation
    DOI 10.1021/ic101001e
    Type Journal Article
    Author Hinteregger E
    Journal Inorganic Chemistry
    Pages 7964-7968
  • 2010
    Title A Quantum Mechanical Charge Field Molecular Dynamics Study of Fe2+ and Fe3+ Ions in Aqueous Solutions
    DOI 10.1021/ic1002572
    Type Journal Article
    Author Moin S
    Journal Inorganic Chemistry
    Pages 5101-5106
  • 2009
    Title An ab initio quantum mechanical charge field molecular dynamics simulation of a dilute aqueous HCl solution
    DOI 10.1002/jcc.21469
    Type Journal Article
    Author Kritayakornupong C
    Journal Journal of Computational Chemistry
    Pages 1785-1792
  • 2009
    Title Ab Initio quantum mechanical charge field study of hydrated bicarbonate ion: Structural and dynamical properties
    DOI 10.1002/jcc.21308
    Type Journal Article
    Author Vchirawongkwin V
    Journal Journal of Computational Chemistry
    Pages 249-257
  • 2009
    Title Temperature dependence of structure and dynamics of the hydrated Ca2+ ion according to ab initio quantum mechanical charge field and classical molecular dynamics
    DOI 10.1002/jcc.21405
    Type Journal Article
    Author Lim L
    Journal Journal of Computational Chemistry
    Pages 1195-1200
    Link Publication
  • 2009
    Title Hydrated germanium (II): Irregular structural and dynamical properties revealed by a quantum mechanical charge field molecular dynamics study
    DOI 10.1002/jcc.21315
    Type Journal Article
    Author Azam S
    Journal Journal of Computational Chemistry
    Pages 278-285
  • 2010
    Title Hydrolytic conversion of AsO -34 to HAsO -24 : a QMCF MD study
    DOI 10.1039/b927138d
    Type Journal Article
    Author Bhattacharjee A
    Journal Physical Chemistry Chemical Physics
    Pages 6244-6246
  • 2010
    Title The stability of [Zn(NH 3 ) 4 ] 2+ in water : A quantum mechanical/molecular mechanical molecular dynamics study
    DOI 10.1039/c002021d
    Type Journal Article
    Author Fatmi M
    Journal Physical Chemistry Chemical Physics
    Pages 9713-9718
  • 2010
    Title Structure and dynamics of hydrated Ag+: An ab initio quantum mechanical/charge field simulation
    DOI 10.1016/j.cplett.2010.10.008
    Type Journal Article
    Author Blauth C
    Journal Chemical Physics Letters
    Pages 251-255
  • 2010
    Title The influence of the lone electron pair on structure and dynamics of divalent group IV metal ion hydrates
    DOI 10.1016/j.molliq.2010.07.013
    Type Journal Article
    Author Rode B
    Journal Journal of Molecular Liquids
    Pages 79-82
  • 2010
    Title Structure and dynamics of the UO +2 ion in aqueous solution: an ab initio QMCF-MD study
    DOI 10.1039/c003169k
    Type Journal Article
    Author Frick R
    Journal Physical Chemistry Chemical Physics
    Pages 11736-11743
  • 2007
    Title Solvation energy and vibrational spectrum of sulfate in water – An ab initio quantum mechanical simulation
    DOI 10.1016/j.cplett.2007.06.040
    Type Journal Article
    Author Vchirawongkwin V
    Journal Chemical Physics Letters
    Pages 152-157
  • 2007
    Title Structure and Dynamics of Sulfate Ion in Aqueous Solution?An ab initio QMCF MD Simulation and Large Angle X-ray Scattering Study
    DOI 10.1021/jp0702402
    Type Journal Article
    Author Vchirawongkwin V
    Journal The Journal of Physical Chemistry B
    Pages 4150-4155
  • 2007
    Title Quantum mechanical charge field molecular dynamics simulation of the TiO2+ ion in aqueous solution
    DOI 10.1002/jcc.20659
    Type Journal Article
    Author Fatmi M
    Journal Journal of Computational Chemistry
    Pages 1704-1710
  • 2007
    Title Structure and dynamics of the hydrated palladium(II) ion in aqueous solution A QMCF MD simulation and EXAFS spectroscopic study
    DOI 10.1016/j.cplett.2007.08.009
    Type Journal Article
    Author Hofer T
    Journal Chemical Physics Letters
    Pages 193-197
  • 2006
    Title Stability of Different Zinc(II)-Diamine Complexes in Aqueous Solution with Respect to Structure and Dynamics: A QM/MM MD Study
    DOI 10.1021/jp0654213
    Type Journal Article
    Author Fatmi M
    Journal The Journal of Physical Chemistry B
    Pages 151-158
  • 2006
    Title Sr(II) in Water: A Labile Hydrate with a Highly Mobile Structure
    DOI 10.1021/jp0638033
    Type Journal Article
    Author Hofer T
    Journal The Journal of Physical Chemistry B
    Pages 20409-20417

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