Normal mode analysis calculation for a full-atom model with a smaller number of degrees of freedom for huge protein molecules
Author:
Affiliation:
1. Department of Physics, School of Science, Kitasato University
2. School of Social Sciences, Waseda University
Publisher
Biophysical Society of Japan
Subject
General Medicine
Link
https://www.jstage.jst.go.jp/article/biophysico/16/0/16_205/_pdf
Reference7 articles.
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2. [7] Wako, H. & Endo, S. Normal mode analysis based on an elastic network model for biomolecules in the Protein Data Bank, which uses dihedral angles as independent variables. Comput. Biol. Chem. 44, 22–30 (2013).
3. [8] Matsumoto, A. & Ishida, J. Global conformational changes of ribosome observed by normal mode fitting for 3D cryo-EM structures. Structure 17, 1605–1613 (2009).
4. [10] Zheng, W. Anharmonic normal mode analysis of elastic network model improves the modeling of atomic fluctuations in protein crystal structures. Biophy. J. 98, 3025–3034 (2010).
5. [16] Yoshizawa, T., Shimizu, T., Hirano, H., Sato, M. & Hashimoto, H. Structural basis for inhibition of xyloglucan-specific endo-β-1,4-glucanase (XEG) by XEG-protein inhibitor. J. Biol. Chem. 287, 18710–18716 (2012).
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