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Molecular dynamics study on BPTI aqueous solution by ABEEM/MM fluctuating charge model
  • ISSN号:1001-6538
  • 期刊名称:科学通报(英文版)
  • 时间:0
  • 页码:1171-1174
  • 语言:中文
  • 分类:O64[理学—物理化学;理学—化学]
  • 作者机构:[1]Department of Chemistry, Liaoning Normal University, Dalian 116029, China
  • 相关基金:Supported by the National Natural Science Foundation of China (Grant Nos. 20633050 and 20403007) We greatly thank Prof Jay William Ponder for providing the Tinker program.
  • 相关项目:生物分子水溶液体系中非共价相互作用的理论研究-探讨其分子识别机理及质子和能量传递过程
中文摘要:

BPTI 上的分子的动力学模拟(简历藤胰腺的胰岛素禁止者) 水溶液以与分子的力学(ABEEM/MM ) 熔化的原子契约电镀物品否定性均等方法第一次被执行了。包括 ABEEM 参数和力量领域参数的模仿的参数被测试了。包括原子坐标和径向分布函数的 root-mean-square 偏差的一些结构的性质被 ABEEM/MM 波动费用方法学习。结果证明这个模型能与试验性的水晶数据相比获得合理结构的性质。径向分布函数显示那个 ABEEM/MM 方法能很好表达在蛋白质分子和它的包围溶剂水之间的静电的极化。

英文摘要:

Molecular dynamics simulation on BPTI (biovine pancreatic trypsin inhibitor) aqueous solution has been performed for the first time in terms of the atom-bond electronegativity equalization method fused with molecular mechanics (ABEEM/MM). The simulated parameters including ABEEM parameters and force field parameters have been tested. Some structural properties including root-mean-square deviations of atomic coordinates and radial distribution functions were studied by ABEEM/MM fluctuating charge method. The results demonstrate that this model can obtain reasonable structural properties compared with experimental crystal data. The radial distribution functions indicate that ABEEM/MM method can well embody the electrostatic polarizations between protein molecule and its surrounding solvent waters.

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