Akio Kitao

Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 34

Top Venues

The journal of physical chemistry. B

Nature chemical biology

The Journal of chemical physics

Scientific reports

Tokyo Institute of Technology

Kyoto University (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Tokyo Institute of Technology Jul 01 2017

Japan

Professor :: School of Life Science and Technology

The University of Tokyo Apr 01 2003 - Jun 30 2017

Japan

Associate Professor :: Institute of Molecular and Cellular Biosciences

Japan Atomic Energy Research Institute Feb 01 2002 - Mar 31 2003

Japan

Researcher :: Center for Promotion of Computational Science and Engineering

Kyoto University Apr 01 1993 - Jan 31 2002

Japan

Assistant Professor :: Graduate School of Science

Education History

Kyoto University Apr 01 1991 - Mar 23 1994

Japan

PHD :: Graduate School of Science

Kyoto University Apr 01 1989 - Mar 23 1991

Japan

MSC :: Graduate School of Science

Kyoto University Apr 01 1985 - Mar 24 1989

Japan

BSC :: Faculty of Science

Publications

Louis-Philippe Picard, Alexander Orazietti, Duy Phuoc Tran, Andrejs Tucs, Sari Hagimoto, Zhenzhou Qi, Shuya Kate Huang, Koji Tsuda, Akio Kitao, Adnan Sljoka, Robert Scott Prosser
Balancing G protein selectivity and efficacy in the adenosine A 2A receptor. Nature chemical biology (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B 128 (15) (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B 128 (15) (2024)
Louis-Philippe Picard, Alexander Orazietti, Duy Phuoc Tran, Andrejs Tucs, Sari Hagimoto, Zhenzhou Qi, Shuya Kate Huang, Koji Tsuda, Akio Kitao, Adnan Sljoka, Robert Scott Prosser
Balancing G protein selectivity and efficacy in the adenosine A 2A receptor. Nature chemical biology (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B 128 (15) (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B 128 (15) (2024)
Louis-Philippe Picard, Alexander Orazietti, Duy Phuoc Tran, Andrejs Tucs, Sari Hagimoto, Zhenzhou Qi, Shuya Kate Huang, Koji Tsuda, Akio Kitao, Adnan Sljoka, Robert Scott Prosser
Author Correction: Balancing G protein selectivity and efficacy in the adenosine A 2A receptor. Nature chemical biology (2024)
Louis-Philippe Picard, Alexander Orazietti, Duy Phuoc Tran, Andrejs Tucs, Sari Hagimoto, Zhenzhou Qi, Shuya Kate Huang, Koji Tsuda, Akio Kitao, Adnan Sljoka, Robert Scott Prosser
Balancing G protein selectivity and efficacy in the adenosine A 2A receptor. Nature chemical biology (2024)
Shinji Ikizawa, Tatsuki Hori, Tegar Nurwahyu Wijaya, Hiroshi Kono, Zhen Bai, Tatsuhiro Kimizono, Wenbo Lu, Duy Phuoc Tran, Akio Kitao
PaCS-Toolkit: Optimized Software Utilities for Parallel Cascade Selection Molecular Dynamics (PaCS-MD) Simulations and Subsequent Analyses. The journal of physical chemistry. B 128 (15) (2024)
Tegar N Wijaya, Akio Kitao
Energetic and Kinetic Origins of CALB Interfacial Activation Revealed by PaCS-MD/MSM. The journal of physical chemistry. B (2023)
Mariko Kojima, Satoshi Abe, Tadaomi Furuta, Duy Phuoc Tran, Kunio Hirata, Keitaro Yamashita, Yuki Hishikawa, Akio Kitao, Takafumi Ueno
Engineering of an in-cell protein crystal for fastening a metastable conformation of a target miniprotein. Biomaterials science (2023)
Mariko Kojima, Satoshi Abe, Tadaomi Furuta, Duy Phuoc Tran, Kunio Hirata, Keitaro Yamashita, Yuki Hishikawa, Akio Kitao, Takafumi Ueno
Engineering of an in-cell protein crystal for fastening a metastable conformation of a target miniprotein. Biomaterials science 11 (4) (2023)
Mariko Kojima, Satoshi Abe, Tadaomi Furuta, Duy Phuoc Tran, Kunio Hirata, Keitaro Yamashita, Yuki Hishikawa, Akio Kitao, Takafumi Ueno
Engineering of an in-cell protein crystal for fastening a metastable conformation of a target miniprotein. Biomaterials science 11 (4) (2023)
Mohamed Marzouk Sobeh, Akio Kitao
Dissociation Pathways of the p53 DNA Binding Domain from DNA and Critical Roles of Key Residues Elucidated by dPaCS-MD/MSM. Journal of chemical information and modeling 62 (5) (2022)
Satoshi Yamashita, Misao Mizuno, Kazuhiro Takemura, Akio Kitao, Yasuhisa Mizutani
Dependence of Vibrational Energy Transfer on Distance in a Four-Helix Bundle Protein: Equidistant Increments with the Periodicity of α Helices. The journal of physical chemistry. B 126 (17) (2022)
Duy Phuoc Tran, Yuta Taira, Takumi Ogawa, Ryoga Misu, Yoshiki Miyazawa, Akio Kitao
Inhibition of the hexamerization of SARS-CoV-2 endoribonuclease and modeling of RNA structures bound to the hexamer. Scientific reports 12 (1) (2022)
Takeo Yamawaki, Misao Mizuno, Haruto Ishikawa, Kazuhiro Takemura, Akio Kitao, Yoshitsugu Shiro, Yasuhisa Mizutani
Regulatory Switching by Concerted Motions on the Microsecond Time Scale of the Oxygen Sensor Protein FixL. The journal of physical chemistry. B (2021)
Kenichiro Takaba, Duy Phuoc Tran, Akio Kitao
Edge expansion parallel cascade selection molecular dynamics simulation for investigating large-amplitude collective motions of proteins. The Journal of chemical physics 152 (22) (2021)
Duy Phuoc Tran, Akio Kitao
Kinetic Selection and Relaxation of the Intrinsically Disordered Region of a Protein upon Binding. Journal of chemical theory and computation 16 (4) (2020)
Hiroaki Hata, Yasutaka Nishihara, Masayoshi Nishiyama, Yoshiyuki Sowa, Ikuro Kawagishi, Akio Kitao
High pressure inhibits signaling protein binding to the flagellar motor and bacterial chemotaxis through enhanced hydration. Scientific reports 10 (1) (2020)
Nick Matthews, Akio Kitao, Stephen D Laycock, Steven Hayward
Haptic-Assisted Interactive Molecular Docking Incorporating Receptor Flexibility. Journal of chemical information and modeling 59 (6) (2019)
Kyoko Hanawa-Suetsugu, Yuzuru Itoh, Maisarah Ab Fatah, Tamako Nishimura, Kazuhiro Takemura, Kohei Takeshita, Satoru Kubota, Naoyuki Miyazaki, Wan Nurul Izzati Wan Mohamad Noor, Takehiko Inaba, Nhung Thi Hong Nguyen, Sayaka Hamada-Nakahara, Kayoko Oono-Yakura, Masashi Tachikawa, Kenji Iwasaki, Daisuke Kohda, Masaki Yamamoto, Akio Kitao, Atsushi Shimada, Shiro Suetsugu
Phagocytosis is mediated by two-dimensional assemblies of the F-BAR protein GAS7. Nature communications 10 (1) (2019)
Kei Terayama, Ai Shinobu, Koji Tsuda, Kazuhiro Takemura, Akio Kitao
evERdock BAI: Machine-learning-guided selection of protein-protein complex structure. The Journal of chemical physics 151 (21) (2019)
Duy Phuoc Tran, Akio Kitao
Dissociation Process of a MDM2/p53 Complex Investigated by Parallel Cascade Selection Molecular Dynamics and the Markov State Model. The journal of physical chemistry. B 123 (11) (2019)
Kazuhiro Takemura, Chika Sato, Akio Kitao
ColDock: Concentrated Ligand Docking with All-Atom Molecular Dynamics Simulation. The journal of physical chemistry. B 122 (29) (2018)
Satoshi Yamashita, Misao Mizuno, Duy Phuoc Tran, Hisham M Dokainish, Akio Kitao, Yasuhisa Mizutani
Vibrational Energy Transfer from Heme through Atomic Contacts in Proteins. The journal of physical chemistry. B 122 (22) (2018)
Hisham M Dokainish, Akio Kitao
Similarities and Differences between Thymine(6-4)Thymine/Cytosine DNA Lesion Repairs by Photolyases. The journal of physical chemistry. B 122 (36) (2018)
Ai Shinobu, Kazuhiro Takemura, Nobuyuki Matubayasi, Akio Kitao
Refining evERdock: Improved selection of good protein-protein complex models achieved by MD optimization and use of multiple conformations. The Journal of chemical physics 149 (19) (2018)
Steven Hayward, Akio Kitao
Multi-strand β-sheet of Alzheimer Aβ(1-40) folds to β-strip helix: implication for protofilament formation. Journal of biomolecular structure & dynamics 37 (8) (2018)
Kazuhiro Takemura, Nobuyuki Matubayasi, Akio Kitao
Binding free energy analysis of protein-protein docking model structures by evERdock. The Journal of chemical physics 148 (10) (2018)
Akio Kitao, Hiroaki Hata
Molecular dynamics simulation of bacterial flagella. Biophysical reviews 10 (2) (2017)
Duy Phuoc Tran, Kazuhiro Takemura, Kazuo Kuwata, Akio Kitao
Protein-Ligand Dissociation Simulated by Parallel Cascade Selection Molecular Dynamics. Journal of chemical theory and computation 14 (1) (2017)
Kazuhiro Takemura, Kyoko Hanawa-Suetsugu, Shiro Suetsugu, Akio Kitao
Salt Bridge Formation between the I-BAR Domain and Lipids Increases Lipid Density and Membrane Curvature. Scientific reports 7 (1) (2017)

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Publication Activity (10 Years)

Top Topics

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Akio Kitao