Can the DFT-D method describe the full range of noncovalent interactions found in large biomolecules?

被引:119
作者
Morgado, Claudio [1 ]
Vincent, Mark A. [1 ]
Hillier, Ian H. [1 ]
Shan, Xiao [1 ]
机构
[1] Univ Manchester, Sch Chem, Manchester M13 9PL, Lancs, England
关键词
D O I
10.1039/b615263e
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
The DFT-D method is shown to yield interaction energies between biologically important groups to an accuracy comparable to that obtained using state-of-the-art ab initio methods.
引用
收藏
页码:448 / 451
页数:4
相关论文
共 16 条
[1]   Density functional theory including dispersion corrections for intermolecular interactions in a large benchmark set of biologically relevant molecules [J].
Antony, Jens ;
Grimme, Stefan .
PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2006, 8 (45) :5287-5293
[2]   A NEW MIXING OF HARTREE-FOCK AND LOCAL DENSITY-FUNCTIONAL THEORIES [J].
BECKE, AD .
JOURNAL OF CHEMICAL PHYSICS, 1993, 98 (02) :1372-1377
[3]   Stabilization energies of the hydrogen-bonded and stacked structures of nucleic acid base pairs in the crystal geometries of CG, AT, and AC DNA steps and in the NMR geometry of the 5′-d(GCGAAGC)-3′ hairpin:: Complete basis set calculations at the MP2 and CCSD(T) levels [J].
Dabkowska, I ;
Gonzalez, HV ;
Jurecka, P ;
Hobza, P .
JOURNAL OF PHYSICAL CHEMISTRY A, 2005, 109 (06) :1131-1136
[4]   Accurate description of van der Waals complexes by density functional theory including empirical corrections [J].
Grimme, S .
JOURNAL OF COMPUTATIONAL CHEMISTRY, 2004, 25 (12) :1463-1473
[5]   True stabilization energies for the optimal planar hydrogen-bonded and stacked structures of guanine•••cytosine, adenine•••thymine, and their 9-and 1-methyl derivatives:: Complete basis set calculations at the MP2 and CCSD(T) levels and comparison with experiment [J].
Jurecka, P ;
Hobza, P .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2003, 125 (50) :15608-15613
[6]   Benchmark database of accurate (MP2 and CCSD(T) complete basis set limit) interaction energies of small model complexes, DNA base pairs, and amino acid pairs [J].
Jurecka, P ;
Sponer, J ;
Cerny, J ;
Hobza, P .
PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2006, 8 (17) :1985-1993
[7]   Potential energy surface of the cytosine dimer: MP2 complete basis set limit interaction energies, CCSD(T) correction term, and comparison with the AMBER force field [J].
Jurecka, P ;
Sponer, J ;
Hobza, P .
JOURNAL OF PHYSICAL CHEMISTRY B, 2004, 108 (17) :5466-5471
[8]  
Kabelác M, 2001, J PHYS CHEM B, V105, P5804
[9]   IMOMM - A NEW INTEGRATED AB-INITIO PLUS MOLECULAR MECHANICS GEOMETRY OPTIMIZATION SCHEME OF EQUILIBRIUM STRUCTURES AND TRANSITION-STATES [J].
MASERAS, F ;
MOROKUMA, K .
JOURNAL OF COMPUTATIONAL CHEMISTRY, 1995, 16 (09) :1170-1179
[10]   Are the hydrogen bonds of RNA (A•U) stronger than those of DNA (A•T)?: A quantum mechanics study [J].
Pérez, A ;
Sponer, J ;
Jurecka, P ;
Hobza, P ;
Luque, FJ ;
Orozco, M .
CHEMISTRY-A EUROPEAN JOURNAL, 2005, 11 (17) :5062-5066