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Development of an integrated structural determination system employing crystallographic diffraction data and ab initio electronic structure calculation of biological macromolecules

Development of an integrated structural determination system employing crystallographic diffraction data and ab initio electronic structure calculation of biological macromolecules
开发利用生物大分子晶体衍射数据和从头算电子结构计算的集成结构测定系统
批准号:
23654129
负责人:
TATENO Masaru
金额:
$2.58万
依托单位:
依托单位国家:
日本
项目类别:
Grant-in-Aid for Challenging Exploratory Research
财政年份:
2011
资助国家:
日本
项目状态:
已结题
起止时间:
2011 至 --

项目摘要

项目成果

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中文摘要
翻译
在这项研究中,我们开发了一套理论方案和计算系统,通过整合晶体衍射数据和从头计算得到的电子态,同时确定生物大分子体系的三维结构和电子结构。在我们的算法中,信息方法在获得晶体数据中所涉及的重要电子/几何结构信息以及通过从头计算获得的电子态方面起着至关重要的作用。我们对本研究中开发的方案和计算系统进行了评估。作为分析的结果,我们找到了实现目标的关键问题;然后,通过解决这些问题,我们创建了改进的理论方案,从而产生了实现上述结构确定策略的原型系统。这为进一步完善所获得的信息系统奠定了坚实的基础,从而创造了一种高精度确定生物大分子体系电子结构和几何结构的新策略。
英文摘要
In this study, we developed a theoretical scheme and a computational system to simultaneously determine the three-dimensional and electronic structures of biological macromolecular systems by integrating crystallographic diffraction data and electronic states obtained by ab initio quantum mechanics calculation. In our algorithm, informatical approaches play a crucial role to obtain the important electronic/geometric structural information involved in the crystallographic data and the electronic states obtained by using ab initio calculations. We evaluated the scheme and the computational system that were developed in this study. As a result of the analysis, we found the critical issues to achieve our goal ; then, we created the improved theoretical schemes by resolving the issues, and thus, produced a prototype system to actualize the strategy for the above-mentioned structural determination. This is a solid basis to further sophisticate the obtained informatical system, thereby leading to create a new strategy to determine the electronic and geometric structures of biological macromolecular systems with high accuracy.
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Recent Applications of Hybrid Ab Initio Quantum Mechanics/Molecular Mechanics Simulations to Biological Macromolecules, In Some Applications of Quantum Mechanics
混合从头算量子力学/分子力学模拟在生物大分子中的最新应用,在量子力学的一些应用中
DOI: --
发表时间: 2012
期刊:
影响因子: --
作者: [Jiyoung Kang, Yohsuke Hagiwara, and Masaru Tateno]
通讯作者: and Masaru Tateno
A computational study of functional role of axial methionine ligand of Cu_A site in cytochro me c oxidase
细胞色素c氧化酶Cu_A位点轴向蛋氨酸配体功能作用的计算研究
DOI: --
发表时间: 2011
期刊:
影响因子: --
作者: [Jiyoung Kang, Masaru Tateno]
通讯作者: Masaru Tateno
生体反応の量子ハイブリッド分子動力学シミュレーション,赤井久純,白井光雲編「密度汎関数理論の発展とマテリアルデザインへの応用」
生物反应的量子混合分子动力学模拟,赤井久纯和白井光云主编,“密度泛函理论的发展及其在材料设计中的应用”
DOI: --
发表时间: 2011
期刊:
影响因子: --
作者: [萩原陽介, 姜志怜, 舘野賢]
通讯作者: 舘野賢
シトクロム酸化酵素のHeme a_3及びCu_Bサイトにおける電子構造の解析
细胞色素氧化酶Heme a_3和Cu_B位点电子结构分析
DOI: --
发表时间: 2011
期刊:
影响因子: --
作者: [枩岡亨, Jiyoung Kang, 舘野賢]
通讯作者: 舘野賢
14
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    • 财政年份:
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