Building a macro-mixing dual‑basin Gō model using the Multistate Bennett Acceptance Ratio-Reference-Cited by-同舟云学术

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Building a macro-mixing dual‑basin Gō model using the Multistate Bennett Acceptance Ratio

Published:2019 Issue:0 Volume:16 Page:310-321
ISSN:2189-4779
Container-title:Biophysics and Physicobiology
language:en
Short-container-title:BIOPHYSICS

Author:

Shinobu Ai¹,Kobayashi Chigusa¹,Matsunaga Yasuhiro²,Sugita Yuji¹³⁴

Affiliation:

1. Computational Biophysics Research Team, RIKEN Center for Computational Science

2. Graduate School of Science and Engineering, Saitama University

3. Theoretical Molecular Science Laboratory, RIKEN Cluster for Pioneering Research

4. Laboratory for Biomolecular Function Simulation, RIKEN Center for Biosystems Dynamics Research

Publisher

Biophysical Society of Japan

Subject

General Medicine

Link

https://www.jstage.jst.go.jp/article/biophysico/16/0/16_310/_pdf

Reference23 articles.

1. [2] Huse, M. & Kuriyan, J. The conformational plasticity of protein kinases. Cell 109, 275–282 (2002).

2. [3] Margittai, M., Widengren, J., Schweinberger, E., Schröder, G., Felekyan, S., Haustein, E., et al. Single-molecule fluorescence resonance energy transfer reveals a dynamic equilibrium between closed and open conformations of syntaxin 1. Proc. Natl. Acad. Sci. USA 100, 15516–15521 (2003).

3. [5] Ma, B. & Nussinov, R. Enzyme dynamics point to stepwise conformational selection in catalysis. Cur. Opin. Chem. Biol. 14, 652–659 (2010).

4. [20] Yu, I., Mori, T., Ando, T., Harada, R., Jung, J., Sugita, Y., et al. Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm. Elife 5, e19274 (2016).

5. [22] Trovato, F. & Fumagalli, G. Molecular simulations of cellular processes. Biophys. Rev. 9, 941–958 (2017).

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