Structure prediction based on ab initio simulated annealing

被引:14
|
作者
Doll, K. [1 ]
Schoen, J. C. [1 ]
Jansen, M. [1 ]
机构
[1] Max Planck Inst Solid State Res, D-70569 Stuttgart, Germany
关键词
D O I
10.1088/1742-6596/117/1/012014
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 prediction of possible crystal structures, with the type of atoms as the only input, has become a fast growing field of research. The general approach consists of the global exploration of the energy landscape of the chemical system, with typical methods being simulated annealing or genetic algorithms. In the case of simulated annealing, combinations of model potentials and ab initio calculations for the energy evaluation are state of the art. Only very recently, the possibility of simulated annealing based on ab initio calculations at all stages of the calculations has become feasible. This article summarizes the recent developments in this area.
引用
收藏
页数:6
相关论文
共 50 条
  • [21] Ab Initio prediction of mycobacteriophages protein structure and function
    Kapadia, Chiraag D.
    Rinehart, Claire A.
    BMC BIOINFORMATICS, 2013, 14
  • [22] Ab initio Structure Prediction Methods for Battery Materials
    Harper, Angela F.
    Evans, Matthew L.
    Darby, James P.
    Karasulu, Bora
    Kocer, Can P.
    Nelson, Joseph R.
    Morris, Andrew J.
    JOHNSON MATTHEY TECHNOLOGY REVIEW, 2020, 64 (02): : 103 - 118
  • [23] Ab initio prediction of protein structure using LINUS
    Srinivasan, R
    Rose, GD
    PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2002, 47 (04) : 489 - 495
  • [24] SIMULATED ANNEALING AS A TOOL FOR AB-INITIO PHASING IN X-RAY CRYSTALLOGRAPHY
    SU, WP
    ACTA CRYSTALLOGRAPHICA SECTION A, 1995, 51 : 845 - 849
  • [25] Simulated annealing method applied to protein structure prediction
    Chen, WF
    Li, KY
    Liu, J
    PROCEEDINGS OF THE 2004 INTERNATIONAL CONFERENCE ON MACHINE LEARNING AND CYBERNETICS, VOLS 1-7, 2004, : 2848 - 2852
  • [26] On Potential Energy Models for EA-based Ab Initio Protein Structure Prediction
    Mijajlovic, Milan
    Biggs, Mark J.
    Djurdjevic, Dusan P.
    EVOLUTIONARY COMPUTATION, 2010, 18 (02) : 255 - 275
  • [27] GalaxyHeteromer: protein heterodimer structure prediction by template-based and ab initio docking
    Park, Taeyong
    Won, Jonghun
    Baek, Minkyung
    Seok, Chaok
    NUCLEIC ACIDS RESEARCH, 2021, 49 (W1) : W237 - W241
  • [28] Ab initio protein structure prediction and a comparative genetic algorithm
    Gregurick, S
    Pedersen, J
    Moult, J
    BIOPHYSICAL JOURNAL, 1999, 76 (01) : A382 - A382
  • [29] An Enhanced Genetic Algorithm for Ab Initio Protein Structure Prediction
    Rashid, Mahmood A.
    Khatib, Firas
    Hoque, Md Tamjidul
    Sattar, Abdul
    IEEE TRANSACTIONS ON EVOLUTIONARY COMPUTATION, 2016, 20 (04) : 627 - 644
  • [30] Ab initio protein structure prediction using pathway models
    Yuan, X
    Shao, Y
    Bystroff, C
    COMPARATIVE AND FUNCTIONAL GENOMICS, 2003, 4 (04): : 397 - 401