Polarizable force fields: History, test cases, and prospects

被引:278
作者
Warshel, Arieh [1 ]
Kato, Mitsunori [1 ]
Pisliakov, Andrei V. [1 ]
机构
[1] Univ So Calif, Los Angeles, CA 90089 USA
关键词
D O I
10.1021/ct700127w
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
A consistent treatment of electrostatic energies is arguably the most important requirement for the realistic modeling of biological systems. An important part of electrostatic modeling is the ability to account for the polarizability of the simulated system. This can be done both macroscopically and microscopically, but the use of macroscopic models may lead to conceptual traps, which do not exist in the microscopic treatments. The present work describes the development of microscopic polarizable force fields starting with the introduction of these powerful tools and following some of the subsequent developments in the field. Special effort has been made to review a wide range of applications and emphasize cases when the use of polarizable force fields is important. Finally, a brief perspective is given on the future of this rapidly growing field.
引用
收藏
页码:2034 / 2045
页数:12
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共 172 条
[91]  
Mataga N., 1970, Molecular Interactions and Electronic Spectra
[92]   CL STUDY OF WATER DIMER POTENTIAL SURFACE [J].
MATSUOKA, O ;
CLEMENTI, E ;
YOSHIMINE, M .
JOURNAL OF CHEMICAL PHYSICS, 1976, 64 (04) :1351-1361
[93]   Control of metalloprotein redox potentials: What does site-directed mutagenesis of hemoproteins tell us? [J].
Mauk, AG ;
Moore, GR .
JOURNAL OF BIOLOGICAL INORGANIC CHEMISTRY, 1997, 2 (01) :119-125
[94]   INDO AND MINDO-3 ATOM-IN-MOLECULE POLARIZABILITIES [J].
METZGER, RM .
JOURNAL OF CHEMICAL PHYSICS, 1981, 74 (06) :3444-3457
[95]   Water and ion permeation in bAQP1 and GlpF channels: A kinetic Monte Carlo study [J].
Miloshevsky, GV ;
Jordan, PC .
BIOPHYSICAL JOURNAL, 2004, 87 (06) :3690-3702
[96]   Energetic optimization of ion conduction rate by the K+ selectivity filter [J].
Morais-Cabral, JH ;
Zhou, YF ;
MacKinnon, R .
NATURE, 2001, 414 (6859) :37-42
[97]   SOLVATION FREE-ENERGIES OF AMIDES AND AMINES - DISAGREEMENT BETWEEN FREE-ENERGY CALCULATIONS AND EXPERIMENT [J].
MORGANTINI, PY ;
KOLLMAN, PA .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1995, 117 (22) :6057-6063
[98]   The reorganization energy of cytochrome c revisited [J].
Muegge, I ;
Qi, PX ;
Wand, AJ ;
Chu, ZT ;
Warshel, A .
JOURNAL OF PHYSICAL CHEMISTRY B, 1997, 101 (05) :825-836
[99]   Small Molecule Docking and Scoring [J].
Muegge, Ingo ;
Rarey, Matthias .
REVIEWS IN COMPUTATIONAL CHEMISTRY, VOL 17, 2001, 17 :1-60
[100]   COMPUTER MODELING OF ENZYME CATALYZED REACTION-MECHANISMS [J].
MULHOLLAND, AJ ;
GRANT, GH ;
RICHARDS, WG .
PROTEIN ENGINEERING, 1993, 6 (02) :133-147