Assessment of performance of the general purpose polarizable force field QMPFF3 in condensed phase
暂无分享,去创建一个
Nikolay G. Galkin | Alexey A. Illarionov | Michael A. Olevanov | Leonid B. Pereyaslavets | Vladimir I. Tarasov | Alexander G. Donchev | Oleg V. Khoruzhii | Vladimir D. Ozrin | A. Donchev | L. Pereyaslavets | V. Ozrin | O. Khoruzhii | N. Galkin | V. Tarasov | A. Illarionov | M. Olevanov
[1] W. L. Jorgensen,et al. Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids , 1996 .
[2] M. V. Subbotin,et al. A quantum mechanical polarizable force field for biomolecular interactions , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[3] James S. Chickos,et al. Enthalpies of Sublimation of Organic and Organometallic Compounds. 1910–2001 , 2002 .
[4] Charles L. Brooks,et al. CHARMM fluctuating charge force field for proteins: I parameterization and application to bulk organic liquid simulations , 2004, J. Comput. Chem..
[5] P. Kollman,et al. A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules , 1995 .
[6] A. Donchev,et al. Ab initio quantum force field for simulations of nanostructures , 2006 .
[7] W. C. Swope,et al. A computer simulation method for the calculation of equilibrium constants for the formation of physi , 1981 .
[8] E. Cox. Crystal Structure of Benzene , 1958 .
[9] George A. Kaminski,et al. Development of an Accurate and Robust Polarizable Molecular Mechanics Force Field from ab Initio Quantum Chemistry , 2004 .
[10] M. V. Subbotin,et al. Water properties from first principles: simulations by a general-purpose quantum mechanical polarizable force field. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[11] T. Halgren. Merck molecular force field. I. Basis, form, scope, parameterization, and performance of MMFF94 , 1996, J. Comput. Chem..
[12] V I Tarasov,et al. Quantum mechanical polarizable force field (QMPFF3): refinement and validation of the dispersion interaction for aromatic carbon. , 2006, The Journal of chemical physics.
[13] Joseph O. Hirschfelder,et al. Second Virial Coefficients and the Forces Between Complex Molecules , 1942 .
[14] Arnold T. Hagler,et al. Derivation of Class II Force Fields. 7. Nonbonded Force Field Parameters for Organic Compounds , 1999 .
[15] M. Tuckerman,et al. Ab initio molecular dynamics: concepts, recent developments, and future trends. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[16] Bertrand Guillot,et al. A reappraisal of what we have learnt during three decades of computer simulations on water , 2002 .
[17] S. Tsuzuki,et al. Origin of attraction and directionality of the pi/pi interaction: model chemistry calculations of benzene dimer interaction. , 2002, Journal of the American Chemical Society.
[18] P. Kollman,et al. How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? , 2000 .
[19] H. Berendsen,et al. Molecular dynamics with coupling to an external bath , 1984 .
[20] A. Bashir-Hashemi,et al. The enthalpy of sublimation of cubane , 2004 .
[21] A. Donchev,et al. Anisotropic nonadditive ab initio force field for noncovalent interactions of H2. , 2007, The Journal of chemical physics.
[22] Alexander D. MacKerell,et al. All-atom empirical potential for molecular modeling and dynamics studies of proteins. , 1998, The journal of physical chemistry. B.
[23] Richard A Friesner,et al. Efficient Simulation Method for Polarizable Protein Force Fields: Application to the Simulation of BPTI in Liquid Water. , 2005, Journal of chemical theory and computation.
[24] A. Donchev,et al. Contribution of quantum molecular flexibility to the second virial coefficient of water vapor. , 2006, Physical review letters.
[25] Harry A. Stern,et al. Development of a polarizable force field for proteins via ab initio quantum chemistry: First generation model and gas phase tests , 2002, J. Comput. Chem..
[26] James S. Chickos,et al. Enthalpies of Vaporization of Organic and Organometallic Compounds, 1880-2002 , 2003 .
[27] I-Feng W. Kuo,et al. An ab Initio Molecular Dynamics Study of the Aqueous Liquid-Vapor Interface , 2004, Science.
[28] Michael Levitt,et al. Near-native structure refinement using in vacuo energy minimization , 2007, Proceedings of the National Academy of Sciences.
[29] Alexander D. MacKerell,et al. CHARMM fluctuating charge force field for proteins: II Protein/solvent properties from molecular dynamics simulations using a nonadditive electrostatic model , 2004, J. Comput. Chem..
[30] J. Nocedal. Updating Quasi-Newton Matrices With Limited Storage , 1980 .
[31] M. Klein,et al. Nosé-Hoover chains : the canonical ensemble via continuous dynamics , 1992 .
[32] Alan E. Mark,et al. The GROMOS96 Manual and User Guide , 1996 .
[33] G. E. Bacon,et al. A crystallographic study of solid benzene by neutron diffraction , 1964, Proceedings of the Royal Society of London. Series A. Mathematical and Physical Sciences.