Perspective: Computer simulations of long time dynamics

被引:53
|
作者
Elber, Ron [1 ]
机构
[1] Univ Texas Austin, Inst Computat Engn & Sci, Dept Chem, Austin, TX 78712 USA
来源
JOURNAL OF CHEMICAL PHYSICS | 2016年 / 144卷 / 06期
关键词
ATOMICALLY DETAILED SIMULATIONS; MOLECULAR-DYNAMICS; FOLDING PATHWAYS; SPECIAL-PURPOSE; STRING METHOD; TRANSITION; TRAJECTORIES; KINETICS; COMPUTATION; ALGORITHMS;
D O I
10.1063/1.4940794
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
Atomically detailed computer simulations of complex molecular events attracted the imagination of many researchers in the field as providing comprehensive information on chemical, biological, and physical processes. However, one of the greatest limitations of these simulations is of time scales. The physical time scales accessible to straightforward simulations are too short to address many interesting and important molecular events. In the last decade significant advances were made in different directions (theory, software, and hardware) that significantly expand the capabilities and accuracies of these techniques. This perspective describes and critically examines some of these advances. (C) 2016 AIP Publishing LLC.
引用
收藏
页数:12
相关论文
共 50 条
  • [1] Long time dynamics of biomolecules: Computer simulations
    Elber, R
    Olender, R
    PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY, 1996, 65 : SA303 - SA303
  • [2] Dynamics of poly(ethylene oxide) in nanoscale confinements: A computer simulations perspective
    Kuppa, V
    Manias, E
    JOURNAL OF CHEMICAL PHYSICS, 2003, 118 (07): : 3421 - 3429
  • [3] Deduction of Markov processes as long time descriptions of systems studied using molecular dynamics computer simulations
    Andersen, Hans C.
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2006, 231
  • [4] Polymer dynamics: Long time simulations and topological constraints
    Kremer, K.
    COMPUTER SIMULATIONS IN CONDENSED MATTER SYSTEMS: FROM MATERIALS TO CHEMICAL BIOLOGY, VOL 2, 2006, 704 : 341 - 378
  • [5] Polymer dynamics: Long time simulations and topological constraints
    Kremer, Kurt
    BRAZILIAN JOURNAL OF PHYSICS, 2006, 36 (3A) : 627 - 630
  • [6] Long-time protein folding dynamics from short-time molecular dynamics simulations
    Chodera, John D.
    Swope, William C.
    Pitera, Jed W.
    Dill, Ken A.
    MULTISCALE MODELING & SIMULATION, 2006, 5 (04): : 1214 - 1226
  • [7] Computer simulations of the dynamics of polymer solutions
    Duenweg, Burkhard
    JOURNAL OF COMPUTER-AIDED MATERIALS DESIGN, 2007, 14 : 259 - 264
  • [8] COMPUTER-SIMULATIONS OF POLYMER DYNAMICS
    NOID, DW
    SUMPTER, BG
    WUNDERLICH, B
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 1989, 198 : 249 - POLY
  • [10] Computer simulations of chemical dynamics.
    Holt, PL
    Cooke, SL
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2001, 222 : U187 - U188