Rchr
J-GLOBAL ID:201501019487248486
Update date: Nov. 14, 2024 Sakuraba Shun
サクラバ シュン | Sakuraba Shun
Affiliation and department: Research field (2):
Bio-, chemical, and soft-matter physics
, Basic physical chemistry
Research keywords (5):
Rational Protein Design
, Free energy calculation
, Structural Biology
, Biomolecules
, Molecular Dynamics
Research theme for competitive and other funds (8): - 2022 - 2027 Genomic dynamics underlying the plastic hermaphroditism in plants: the basis of exploratory reproductive adaptations
- 2022 - 2027 Molecular dynamic mechanism of the sexual selection core in the plant hermaphroditism
- 2021 - 2024 修飾塩基を持つRNAの情報解析基盤技術の開発
- 2020 - 2023 Distribution Matching Principle for Machine Learning Based Molecular Simulation
- 2020 - 2022 Quick sampling of protein large conformational changes
- 2019 - 2021 Empirical valence bond method combined with extended ensemble simulations and its application to molecular engines
- 2018 - 2019 エピトランスクリプトーム解析のためのRNAインフォマティクス基盤技術
- 2016 - 2019 修飾核酸の分子動力学計算のための基盤構築
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Papers (46): -
Kenji Watanabe, Tatsuro Yamamoto, Tomoko Fujita, Shinjiro Hino, Yuko Hino, Kanami Yamazaki, Yoshimi Ohashi, Shun Sakuraba, Hidetoshi Kono, Mitsuyoshi Nakao, et al. Metabolically inducing defects in DNA repair sensitizes BRCA -wild-type cancer cells to replication stress. Science Signaling. 2024. 17. 862
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Masahiko Taguchi, Shun Sakuraba, Justin Chan, Hidetoshi Kono. Unveiling the Photoactivation Mechanism of BLUF Photoreceptor Protein through Hybrid Quantum Mechanics/Molecular Mechanics Free-Energy Calculation. ACS Physical Chemistry Au. 2024
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Junichi Higo, Kota Kasahara, Gert-Jan Bekker, Benson Ma, Shun Sakuraba, Shinji Iida, Narutoshi Kamiya, Ikuo Fukuda, Hidetoshi Kono, Yoshifumi Fukunishi, et al. Fly casting with ligand sliding and orientational selection supporting complex formation of a GPCR and a middle sized flexible molecule. Scientific Reports. 2022. 12. 1
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Effi Haque, Aamir Salam Teeli, Dawid Winiarczyk, Masahiko Taguchi, Shun Sakuraba, Hidetoshi Kono, Paweł Leszczyński, Mariusz Pierzchała, Hiroaki Taniguchi. HNF1A POU Domain Mutations Found in Japanese Liver Cancer Patients Cause Downregulation of HNF4A Promoter Activity with Possible Disruption in Transcription Networks. Genes. 2022
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Shun Sakuraba, Qilin Xie, Kota Kasahara, Junichi Iwakiri, Hidetoshi Kono. Extended ensemble simulations of a SARS-CoV-2 nsp1-5’-UTR complex. PLOS Computational Biology. 2022. 18. 1. e1009804-e1009804
more... MISC (2): -
Shun Sakuraba. Comment on “Replica-exchange-with-tunneling for fast exploration of protein landscapes” [J. Chem. Phys. 143, 224102 (2015)]. The Journal of Chemical Physics. 2016. 145. 5. 057101-057101
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Sakuraba Shun, Kitao Akio. 21pTC-6 Efficient umbrella sampling method for biomolecules. Meeting abstracts of the Physical Society of Japan. 2007. 62. 1. 376-376
Education (3): - 2005 - 2010 The University of Tokyo Graduate School of Frontier Sciences Department of Computational Biology
- 2003 - 2005 The University of Tokyo Department of Pharmaceutical Sciences Faculty of Pharmaceutical Sciences
- 2001 - 2003 The University of Tokyo College of Arts and Sciences Science 1
Professional career (1): Work history (7): - 2018/04 - 現在 National Institutes for Quantum and Radiological Science and Technology Institute for Quantum Life Science Researcher
- 2016/06 - 2018/03 The University of Tokyo Graduate School of Frontier Sciences Project Assistant Professor
- 2015/04 - 2016/05 The University of Tokyo Graduate School of Frontier Sciences Project Researcher
- 2014/04 - 2015/03 Japan Atomic Energy Agency Quantum Beam Science Center Post-doctoral fellow
- 2012/04 - 2014/03 Japan Atomic Energy Agency Quantum Beam Directorate Post-doctoral fellow
- 2011/05 - 2012/03 Institute for Molecular Science, National Institutes for Natural Sciences Department of Theoretical and Computational Molecular Science Post-doctoral fellow
- 2010/04 - 2011/04 Kyoto University Institute for Chemical Research Project Researcher
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Awards (3): - 2010/03 - Graduate School of Frontier Sciences, The University of Tokyo Dean's award
- 2009/12 - The Molecular Simulation Sciety of Japan Student Research Award
- 2009/05 - Information Processing Society Japan Cell Challenge 2009
Association Membership(s) (1):
THE MOLECULAR SIMULATION SOCIETY OF JAPAN
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