Development of ReaxFF Reactive Force Field for Aqueous Iron-Sulfur Clusters with Applications to Stability and Reactivity in Water

被引:8
作者
Moerman, Evgeny [1 ]
Furman, David [1 ,2 ]
Wales, David J. [1 ]
机构
[1] Univ Cambridge, Yusuf Hamied Dept Chem, Cambridge CB2 1EW, England
[2] NRCN, Div Chem, IL-84190 Beer Sheva, Israel
基金
英国工程与自然科学研究理事会;
关键词
SIMULATIONS; HYDROLYSIS; PATHWAYS; DYNAMICS; SULFIDE;
D O I
10.1021/acs.jcim.0c01292
中图分类号
R914 [药物化学];
学科分类号
100701 ;
摘要
Iron-sulfur clusters serve unique roles in biochemistry, geochemistry, and renewable energy technologies. However, a full theoretical understanding of their structures and properties is still lacking. To facilitate large-scale reactive molecular dynamics simulations of iron-sulfur clusters in aqueous environments, a ReaxFF reactive force field is developed, based on an extensive set of quantum chemical calculations. This force field compares favorably with the reference calculations on gas-phase species and significantly improves on a previous ReaxFF parametrization. We employ the new potential to study the stability and reactivity of iron-sulfur clusters in explicit water with constant-temperature reactive molecular dynamics. The aqueous species exhibit a dynamic, temperature-dependent behavior, in good agreement with previous much more costly ab initio simulations.
引用
收藏
页码:1204 / 1214
页数:11
相关论文
共 45 条
[1]   Iron-sulfur clusters: Nature's modular, multipurpose structures [J].
Beinert, H ;
Holm, RH ;
Munck, E .
SCIENCE, 1997, 277 (5326) :653-659
[2]  
Bonfio C, 2017, NAT CHEM, V9, P1229, DOI [10.1038/NCHEM.2817, 10.1038/nchem.2817]
[3]   ReaxFF reactive force field for molecular dynamics simulations of hydrocarbon oxidation [J].
Chenoweth, Kimberly ;
van Duin, Adri C. T. ;
Goddard, William A., III .
JOURNAL OF PHYSICAL CHEMISTRY A, 2008, 112 (05) :1040-1053
[4]   Planar three-coordinate iron sulfide in a synthetic [4Fe-3S] cluster with biomimetic reactivity [J].
DeRosha, Daniel E. ;
Chilkuri, Vijay G. ;
Van Stappen, Casey ;
Bill, Eckhard ;
Mercado, Brandon Q. ;
DeBeer, Serena ;
Neese, Frank ;
Holland, Patrick L. .
NATURE CHEMISTRY, 2019, 11 (11) :1019-1025
[5]   Thermodynamics of global optimization [J].
Doye, JPK ;
Wales, DJ .
PHYSICAL REVIEW LETTERS, 1998, 80 (07) :1357-1360
[6]   Modeling Diffusion in Functional Materials: From Density Functional Theory to Artificial Intelligence [J].
Elbaz, Yuval ;
Furman, David ;
Toroker, Maytal Caspary .
ADVANCED FUNCTIONAL MATERIALS, 2020, 30 (18)
[7]  
Frisch M. J., 2009, GAUSSIAN 09
[8]  
Furman D, 2020, FLOCKY TRAINING REAC
[9]   Transforming the Accuracy and Numerical Stability of ReaxFF Reactive Force Fields [J].
Furman, David ;
Wales, David J. .
JOURNAL OF PHYSICAL CHEMISTRY LETTERS, 2019, 10 (22) :7215-7223
[10]   Enhanced Particle Swarm Optimization Algorithm: Efficient Training of ReaxFF Reactive Force Fields [J].
Furman, David ;
Carmeli, Benny ;
Zeiri, Yehuda ;
Kosloff, Ronnie .
JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2018, 14 (06) :3100-3112