An ab initio study of DNA base pair hydrogen bonding: a comparison of plane-wave versus Gaussian-type function methods
暂无分享,去创建一个
Francois Gygi | Michael E. Colvin | Daniel Barsky | F. Gygi | M. Colvin | D. Barsky | R. S Fellers | R. Fellers
[1] Hamann. Generalized norm-conserving pseudopotentials. , 1989, Physical review. B, Condensed matter.
[2] E. Kool,et al. Selective and Stable DNA Base Pairing without Hydrogen Bonds. , 1998, Journal of the American Chemical Society.
[3] J. Šponer,et al. Nature of Nucleic Acid−Base Stacking: Nonempirical ab Initio and Empirical Potential Characterization of 10 Stacked Base Dimers. Comparison of Stacked and H-Bonded Base Pairs , 1996 .
[4] M. Parrinello,et al. Ab-Initio Molecular Dynamics: Principles and Practical Implementation , 1991 .
[5] S. Le,et al. Ion-RNA interactions in the RNA pseudoknot of a ribosomal frameshifting site: molecular modeling studies. , 1998, Journal of biomolecular structure & dynamics.
[6] Pavel Hobza,et al. Performance of empirical potentials (AMBER, CFF95, CVFF, CHARMM, OPLS, POLTEV), semiempirical quantum chemical methods (AM1, MNDO/M, PM3), and ab initio Hartree–Fock method for interaction of DNA bases: Comparison with nonempirical beyond Hartree–Fock results , 1997 .
[7] J. Novoa,et al. On the usefulness of the counterpoise method on hydrogen-bonded complexes: a numerical test using near complete basis sets on H2O … HF, (H2O)2, (HF) 2 and CH4…H2O , 1996 .
[8] K. Szalewicz,et al. Pair potential for water from symmetry-adapted perturbation theory , 1997 .
[9] Roland Lindh,et al. The water dimer interaction energy: Convergence to the basis set limit at the correlated level , 1997 .
[10] M. Klein,et al. Ab initio molecular dynamics study of proton transfer in a polyglycine analog of the ion channel gramicidin A. , 1996, Biophysical journal.
[11] Michele Parrinello,et al. Oxygen binding to iron–porphyrin: A density functional study using both LSD and LSD+GC schemes , 1998 .
[12] J. Šponer,et al. Structures and Energies of Hydrogen-Bonded DNA Base Pairs. A Nonempirical Study with Inclusion of Electron Correlation , 1996 .
[13] F. Buda,et al. Ab initio molecular dynamics of retinals , 1996 .
[14] Curtis L. Janssen,et al. Accurate structures and binding energies for small water clusters: The water trimer , 1999 .
[15] Car,et al. Unified approach for molecular dynamics and density-functional theory. , 1985, Physical review letters.
[16] R. W. Godby,et al. Supercell technique for total-energy calculations of finite charged and polar systems , 1997, cond-mat/9709234.
[17] Payne,et al. Periodic boundary conditions in ab initio calculations. , 1995, Physical review. B, Condensed matter.
[18] J. V. Lenthe,et al. State of the Art in Counterpoise Theory , 1994 .
[19] Michiel Sprik,et al. Ab initio molecular dynamics simulation of liquid water: Comparison of three gradient‐corrected density functionals , 1996 .
[20] Trygve Helgaker,et al. A systematic ab initio study of the water dimer in hierarchies of basis sets and correlation models , 1997 .
[21] H R Drew,et al. The anatomy of A-, B-, and Z-DNA. , 1982, Science.
[22] M. Parrinello. Ab Initio Molecular Dynamics , 1992 .
[23] P. Mishra,et al. Use of molecular analogs for the bases in DNA: Stability of molecular pairs in gas phase and aqueous media and possible role of hydrogen bonding , 1998 .
[24] J. Howard,et al. How good is fluorine as a hydrogen bond acceptor , 1996 .
[25] J. J. Dannenberg,et al. Effect of Basis Set Superposition Error on the Water Dimer Surface Calculated at Hartree-Fock, Møller-Plesset, and Density Functional Theory Levels , 1999 .
[26] Matthew D. Segall,et al. First principles calculation of the activity of cytochrome P450 , 1998 .
[27] J. Sühnel,et al. Quantum-chemical ab initio study on the adenine-difluorotoluene complex--a mimic for the adenine-thymine base pair. , 1997, Journal of biomolecular structure & dynamics.