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J-GLOBAL ID：202002286470130659   Reference number：20A0623038

Normal mode analysis calculation for a full-atom model with a smaller number of degrees of freedom for huge protein molecules

巨大蛋白質分子に対してより小さな自由度数をもつ全原子モデルに対する基準振動解析計算

Author (2)： Endo Shigeru (Department of Physics, School of Science, Kitasato University) ,  Wako Hiroshi (School of Social Sciences, Waseda University)
Material： Biophysics and Physicobiology (Web)  (Biophys Physicobiology (Web))
Volume： 16  Page： 205-212(J-STAGE)  Publication year： 2019 
JST Material Number： U0030A  ISSN： 2189-4779  Document type： Article
Article type： 原著論文  Country of issue： Japan (JPN)  Language： ENGLISH (EN)

Thesaurus term： *protein ,...
Semi thesaurus term： *normal mode analysis ,...

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Author keywords (4)： protein dynamics ,  virtual bond ,  dihedral angle ,  large-amplitude concerted motion

JST classification (4)： Proteins and peptides in general  (EB03010N) ,  Molecular structure  (EB03020Y) ,  Biophysics in general  (EA02020O) ,  Computer simulation  (JE11000H)

Reference (30)：

• [1] Gō, N., Noguti, T. & Nishikawa, T. Dynamics of a small globular protein in terms of low-frequency vibrational modes. Proc. Natl. Acad. Sci. USA 80, 3696-3700 (1983).
• [2] Levitt, M., Sander, C. & Stern, P. S. Protein normal-mode dynamics: Trypsin inhibitor, crambin, ribonuclease and lysozyme. J. Mol. Biol. 181, 423-447 (1985).
• [3] Tirion, M. M. Large amplitude elastic motions in proteins from a single parameter, atomic analysis. Phys. Rev. Lett. 77, 1905-1908 (1996).
• [4] Bahar, I., Atilgan, A. R. & Erman, B. Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential. Fold Des. 2, 173-181 (1997).
• [5] Hinsen, K. Analysis of domain motions by approximate normal mode calculations. Proteins 33, 417-429 (1998).

Terms in the title (6)： 蛋白質 ,  分子 ,  自由度 ,  全原子モデル ,  基準振動解析 ,  計算