Sumikama, Takashi(Graduate School of Biostudies, Division of Integrated Life Science) | Activity Database on Education and Research, Kyoto University

Sumikama, Takashi

Graduate School of Biostudies, Division of Integrated Life Science Program-Specific Senior Lecturer/Program-Specific Junior Associate Professor

Last Updated :2026/08/21

Basic Information

Email Address

Email Address
sumikama.takashi.7nkyoto-u.ac.jp

Professional Memberships

From Sep. 2019, To Present
The Molecular Biology Society of Japan

From Mar. 2019, To Present
Symposium on Toxins

From Jan. 2012, To Present
The Physiological Society of Japan

From Oct. 2011, To Present
The Biophysical Society

From Dec. 2004, To Present
The Biophysical Society of Japan

Academic Degree

25 Mar. 2005
名古屋大学修士（理学）

25 Mar. 2008
名古屋大学博士（理学）

Academic Resume (Undergraduate School/Majors)

名古屋大学, 理学部化学科, 卒業

Research History

From Jun. 2025, To Present
Kanazawa University, Nano Life Science Institute, 協力研究員

From Jun. 2025, To Present
Kyoto University, Graduate School of Biostudies, Jr. Associate Professor

From Apr. 2020, To May 2025
Kanazawa University, Nano Life Science Institute, Assistant Professor

From Nov. 2020, To May 2024
Japan Science and Technology Agency, PRESTO researcher

From Apr. 2018, To Mar. 2020
Kanazawa University, Nano Life Science Institute, Postdoctoral Fellow

From Feb. 2010, To Mar. 2018
University of Fukui, School of Medical Sciences, Assistant Professor

From Oct. 2008, To Jan. 2010
Institute for Molecular Science, Postdoctoral Fellow

From Apr. 2008, To Sep. 2008
Nagoya University, Graduate School of Science, Postdoctoral Fellow

Profile

Profile
ラボのホームページ

ID,URL

ORCID ID
0000-0003-3696-5720
J-Global ID
201801017644376360
Researcher number
30579412
External link
https://www.researchgate.net/profile/Takashi-Sumikama

researchmap URL

https://researchmap.jp/sumikama

Last Updated :2026/08/21

Research

Research Areas

Life sciences, Biophysics

Nanotechnology/Materials, Basic physical chemistry

Natural sciences, Bio-, chemical, and soft-matter physics

Life sciences, Physiology

Papers

Theoretical basis for visualization of slow-moving molecules such as biomolecules using atomic force microscopy
Takashi Sumikama
Journal of Japanese Society for Extremophiles, 2025, Peer-reviewed, Lead author, Last author, Corresponding author

Development of United-Atom Force Fields for Monomeric and Oligomeric Ionic Liquids through Regression-Guided Optimization of Electronic Continuum Correction Parameters
Md Fahim Newaz; Takahiko Ikarashi; Takeshi Fukuma; Takashi Sumikama
ACS Omega, 04 Aug. 2026, Peer-reviewed, Last author, Corresponding author

Opto-MDMi: a dual-lock optogenetic system for robust activation of endogenous p53
Tatsuki Tsuruoka; Takashi Sumikama; Sachiya Nakashima; Yuhei Goto; Kazuhiro Aoki
eLife, 21 Jul. 2026

Cooperative Host–Guest Complexation in Densely Assembled Host Structures on Surfaces Revealed at the Single-Molecular Level
Hitoshi Asakawa; Hiroka Hatano; Shixin Fa; Takashi Sumikama; Mikihiro Shibata; Shu Takashima; Moe Ogasawara; Akio Ohta; Tada-aki Yamagishi; Tomoki Ogoshi
Journal of the American Chemical Society, 10 Jun. 2026, Peer-reviewed
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Hydration-Mediated Energy Landscapes Govern Rotational Flexibility in Membrane-Bound Annexin V Assemblies
Ayhan Yurtsever; Kien Xuan Ngo; Takashi Sumikama; Ayaka Imamura; Shunsuke Mochizuki; Kaito Hirata; Haohui Zhang; Hiroki Konno; Kazuki Miyata; Takeshi Fukuma
Nano Letters, 15 Apr. 2026, Peer-reviewed, Corresponding author
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The dynamic basis of G-protein recognition and activation by a GPCR
Kazuhiro Kobayashi; Kouki Kawakami; Toshiki E. Matsui; Shun Yokoi; Masahiro Fukuda; Tomohiro J. Narita; Hiroki Arai; Mai Tambo; Takashi Sumikama; Manae Tatsumi; Keitaro Yamashita; Junki Koyanagi; Mai Kugawa; Hisako Ikeda; Ayumi Sumino; Ayori Mitsutake; Brian K. Kobilka; Asuka Inoue; Hideaki E. Kato
Nature, 16 Apr. 2026, Peer-reviewed
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SimHS-AFMfit-MD: An Integrative Approach for Inferring Alpha-Actinin Atomic Conformational Dynamics
Kien Xuan Ngo; Takashi Sumikama; Rémi Vuillemot; Han Gia Nguyen; Ngan Thi Phuong Le; Sergei Grudinin
Nano Letters, 11 Mar. 2026, Peer-reviewed, Lead author, Corresponding author

CaMKIIα holoenzymes self-organize into worm-like mesoscale clusters
Taisei Suzuki; Takashi Sumikama; Keisuke Matsushima; Kodai Hasegawa; Ayumi Sumino; Kenichi Umeda; Noriyuki Kodera; Tamoghna Das; Carsten Beta; Hideji Murakoshi; Mikihiro Shibata
bioRxiv, 23 Jan. 2026, Lead author

Structural dynamics of mixed-subunit CaMKIIα/β heterododecamers filmed by high-speed AFM
Keisuke Matsushima; Takashi Sumikama; Taisei Suzuki; Mizuho Ito; Yutaro Nagasawa; Ayumi Sumino; Holger Flechsig; Tomoki Ogoshi; Kenichi Umeda; Noriyuki Kodera; Hideji Murakoshi; Mikihiro Shibata
Nature Communications, 24 Dec. 2025, Peer-reviewed

Molecular Mechanism of Cooperative Opening of Voltage-gated Sodium Channels
Ayumi Sumino; Takashi Sumikama; Mikihiro Shibata; Katsumasa Irie
Seibutsu Butsuri, Nov. 2025, Peer-reviewed, Invited, Corresponding author

Structural basis for alpha-actinin inhibition of cooperative cofilin binding to actin filaments
Kien Xuan Ngo; Takashi Sumikama; Taro QP Uyeda; Ngan Thi Phuong Le; Han Gia Nguyen; Rémi Vuillemot; Sergei Grudinin
bioRxiv, 16 Nov. 2025, Lead author, Corresponding author

Visualizing Molecular-Scale 3D Distributions of Ionic Liquids in Electric Double-Layer Capacitor by 3D Scanning Force Microscopy with Variable Tip/Sample Bias Voltages
Takahiko Ikarashi; Takashi Sumikama; Kaito Hirata; Ryo Sakakibara; Takumi Yoshino; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
ACS Applied Materials & Interfaces, 17 Sep. 2025, Peer-reviewed, Lead author

Structural basis of the hepatitis B virus X protein in complex with DDB1
Hiroki Tanaka; Joao Diogo Dias; Basile Jay; Shunsuke Kita; Mina Sasaki; Hiroyuki Takeda; Naoki Kishimoto; Shunsuke Sasaki; Shogo Misumi; Masashi Mizokami; Christine Neuveut; Takashi Sumikama; Mikihiro Shibata; Katsumi Maenaka; Shinichi Machida
Proceedings of the National Academy of Sciences of the United States of America, 17 Jun. 2025, Peer-reviewed

High-Speed Atomic Force Microscopy Reveals Fluctuations and Dimer Splitting of the N-Terminal Domain of GluA2 Ionotropic Glutamate Receptor-Auxiliary Subunit Complex
Ayumi Sumino; Takashi Sumikama; Yimeng Zhao; Holger Flechsig; Kenichi Umeda; Noriyuki Kodera; Hiroki Konno; Motoyuki Hattori; Mikihiro Shibata
ACS Nano, 10 Sep. 2024, Peer-reviewed, Lead author

Revealing the Mechanism Underlying 3D‐AFM Imaging of Suspended Structures by Experiments and Simulations
Mohammad Shahidul Alam; Marcos Penedo; Takashi Sumikama; Keisuke Miyazawa; Kaori Hirahara; Takeshi Fukuma
Small Methods, 21 Jun. 2024, Peer-reviewed, Corresponding author

Voltage sensors of a Na+ channel dissociate from the pore domain and form inter-channel dimers in the resting state
Ayumi Sumino; Takashi Sumikama; Mikihiro Shibata; Katsumasa Irie
Nature Communications, 19 Dec. 2023, Peer-reviewed, Corresponding author

Computation of topographic and three-dimensional atomic force microscopy images of biopolymers by calculating forces
Takashi Sumikama
Biophysical Reviews, 27 Nov. 2023, Peer-reviewed, Lead author, Last author, Corresponding author

Updating view of membrane transport proteins by simulation studies
Takashi Sumikama; Ben Corry; Junichi Ono; Chigusa Kobayashi; Kei-ichi Okazaki
Biophysics and Physicobiology, 02 Nov. 2023, Peer-reviewed, Lead author, Corresponding author

The structural basis of divalent cation block in a tetrameric prokaryotic sodium channel
Katsumasa Irie; Yoshinori Oda; Takashi Sumikama; Atsunori Oshima; Yoshinori Fujiyoshi
Nature Communications, 15 Jul. 2023, Peer-reviewed

Imaging single CaMKII holoenzymes at work by high-speed atomic force microscopy
Shotaro Tsujioka; Ayumi Sumino; Yutaro Nagasawa; Takashi Sumikama; Holger Flechsig; Leonardo Puppulin; Takuya Tomita; Yudai Baba; Takahiro Kakuta; Tomoki Ogoshi; Kenichi Umeda; Noriyuki Kodera; Hideji Murakoshi; Mikihiro Shibata
Science Advances, 30 Jun. 2023, Peer-reviewed

Antithetic effects of agonists and antagonists on the structural fluctuations of TRPV1 channel
Ayumi Sumino; Yimeng Zhao; Daichi Mukai; Takashi Sumikama; Leonardo Puppulin; Motoyuki Hattori; Mikihiro Shibata
Proceedings of the National Academy of Sciences of the United States of America, 16 May 2023, Peer-reviewed

Intuitive interpretation of heterochromatin and euchromatin through rapid Hi-C analysis
Takashi Sumikama; Takeshi Fukuma
bioRxiv, 28 Oct. 2022, Lead author, Corresponding author

Computed Three-Dimensional Atomic Force Microscopy Images of Biopolymers Using the Jarzynski Equality
Takashi Sumikama; Filippo Federici Canova; David Z. Gao; Marcos Penedo; Keisuke Miyazawa; Adam S. Foster; Takeshi Fukuma
The Journal of Physical Chemistry Letters, 09 Jun. 2022, Peer-reviewed, Lead author, Corresponding author

Vectorial insertion of a β-helical peptide into membrane: A theoretical study on polytheonamide B
Mahroof Kalathingal; Takashi Sumikama; Shigetoshi Oiki; Shinji Saito
Biophysical Journal, Sep. 2021, Peer-reviewed

Conductance selectivity of Na+ across the K+ channel via Na+ trapped in a tortuous trajectory
Kenichiro Mita; Takashi Sumikama; Masayuki Iwamoto; Yuka Matsuki; Kenji Shigemi; Shigetoshi Oiki
Proceedings of the National Academy of Sciences of the United States of America, 23 Mar. 2021, Peer-reviewed, Lead author

Computed Atomic Force Microscopy Images of Chromosomes by Calculating Forces with Oscillating Probes
Takashi Sumikama; Adam S. Foster; Takeshi Fukuma
Journal of Physical Chemistry C, Jan. 2020, Peer-reviewed, Lead author, Corresponding author

Queueing arrival and release mechanism for K+ permeation through a potassium channel
Takashi Sumikama; Shigetoshi Oiki
Journal of Physiological Sciences, Aug. 2019, Peer-reviewed, Lead author

High-speed AFM reveals accelerated binding of agitoxin-2 to a K+ channel by induced fit
Ayumi Sumino; Takashi Sumikama; Takayuki Uchihashi; Shigetoshi Oiki
Science Advances, Jul. 2019, Peer-reviewed, Lead author

Capturing the Freeze-Drying Dynamics of NaCl Nanoparticles Using THz Spectroscopy
Katsuhiro Ajito; Yuko Ueno; Jae-Young Kim; Takashi Sumikama
Journal of the American Chemical Society, Oct. 2018, Peer-reviewed, Lead author, Last author, Corresponding author

Origins of Heat Evolution in Mixing Water and Dimethyl Sulfoxide
Kazuko Mizuno; Takashi Sumikama; Yoshinori Tarnai; Masahiko Tani
2018 43rd International Conference on Infrared, Millimeter, and Terahertz Waves (IRMMW-THz), Sep. 2018, Peer-reviewed

Entrance of Channel Determines Ion Permeation Rate through the Kv1.2 Channel
Takashi SUMIKAMA; Shigetoshi OIKI
Seibutsu Butsuri, Jan. 2018, Peer-reviewed, Invited, Lead author

Structure and dynamics of solvent molecules inside the polytheonamide B channel in different environments: a molecular dynamics study
Mahroof Kalathingal; Takashi Sumikama; Toshifumi Mori; Shigetoshi Oiki; Shinji Saito
Physical Chemistry Chemical Physics, 2018, Peer-reviewed

Digitalized K+ Occupancy in the Nanocavity Holds and Releases Queues of K+ in a Channel
Takashi Sumikama; Shigetoshi Oiki
Journal of the American Chemical Society, Aug. 2016, Peer-reviewed, Lead author

Origin of the Shape of Current-Voltage Curve through Nanopores: A Molecular Dynamics Study
Takashi Sumikama
Scientific Reports, May 2016, Peer-reviewed, Lead author, Last author, Corresponding author

Structure and Dynamics of Membrane-embedded KcsA Potassium Channel Revealed by Atomic Force Microscopy
Ayumi Sumino; Daisuke Yamamoto; Takashi Sumikama; Masayuki Iwamoto; Takehisa Dewa; Shigetoshi Oiki
Seibutsu Butsuri, Jan. 2015, Peer-reviewed, Invited

Mechanism of ion permeation through a model channel: Roles of energetic and entropic contributions
Takashi Sumikama; Shinji Saito; Iwao Ohmine
Journal of Chemical Physics, 28 Oct. 2013, Peer-reviewed, Lead author, Corresponding author

The Open Gate Structure of the Membrane-Embedded KcsA Potassium Channel Viewed From the Cytoplasmic Side
Ayumi Sumino; Takashi Sumikama; Masayuki Iwamoto; Takehisa Dewa; Shigetoshi Oiki
Scientific Reports, Jan. 2013, Peer-reviewed

Cycle Flux Algebra for Ion and Water Flux through the KcsA Channel Single-File Pore Links Microscopic Trajectories and Macroscopic Observables
Shigetoshi Oiki; Masayuki Iwamoto; Takashi Sumikama
PLoS ONE, Jan. 2011, Peer-reviewed

A mesoscopic approach to understanding the mechanisms underlying the ion permeation on the discrete-state diagram
Shigetoshi Oiki; Masayuki Iwamoto; Takashi Sumikama
Journal of General Physiology, Sep. 2010, Peer-reviewed

Mechanism of ion permeation in a model channel: Free energy surface and dynamics of K+ ion transport in an anion-doped carbon nanotube
Takashi Sumikama; Shinji Saito; Iwao Ohmine
Journal of Physical Chemistry B, Oct. 2006, Peer-reviewed, Lead author

Misc.

Opto-MDMi: a dual-lock optogenetic system for robust activation of endogenous p53
Tatsuki Tsuruoka; Takashi Sumikama; Sachiya Nakashima; Yuhei Goto; Kazuhiro Aoki
bioRxiv, 16 Apr. 2026

Imaging of mesoscopic-scale dynamics of CaMKII clusters by high-speed AFM
Taisei Suzuki; Takashi Sumikama; Keisuke Matsushima; Hideji Murakoshi; Mikihiro Shibata
Biophysical Journal, Feb. 2026, Peer-reviewed

Adjacent β subunits in CaMKIIα/β hetero-oligomers enable sustained activation and F-actin binding revealed by HS-AFM and mathematical modeling
Keisuke Matsushima; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
Biophysical Journal, Feb. 2026, Peer-reviewed

SimHS-AFMfit-MD: An Integrative Approach to Deciphering Alpha-Actinin Atomic Conformational Dynamics
Kien Xuan Ngo; Takashi Sumikama; Rémi Vuillemot; Han Gia Nguyen; Ngan Thi Phuong Le; Sergei Grudinin
bioRxiv, 10 Apr. 2025, Lead author, Corresponding author

Structural dynamics of mixed-subunit CaMKIIα/β heterododecamers filmed by high-speed AFM
Mikihiro Shibata; Keisuke Matsushima; Takashi Sumikama; Taisei Suzuki; Mizuho Ito; Yutaro Nagasawa; Ayumi Sumino; Holger Flechsig; Tomoki Ogoshi; Kenichi Umeda; Noriyuki Kodera; Hideji Murakoshi
bioRxiv, 21 May 2025

Voltage Sensors of Na+ Channels Dissociate from the Pore Domain and Form Inter-Channel Dimers in the Resting State: Implications for Cooperative Activation
Ayumi Sumino; Takashi Sumikama; Mikihiro Shibata; Katsumasa Irie
Journal of Physiological Sciences, Mar. 2025, Peer-reviewed

Clustering mechanism of AMPA receptor revealed by high-speed atomic force microscopy observation
Takashi Sumikama; Ayumi Sumino; Yimeng Zhao; Motoyuki Hattori; Mikihiro Shibata
Journal of Physiological Sciences, Mar. 2025, Peer-reviewed, Lead author

Visualizing single-molecule nanodynamics of AMPA-type glutamate receptors by high-speed atomic force microscopy
Mikihiro Shibata; Ayumi Sumino; Takashi Sumikama; Yimeng Zhao; Motoyuki Hattori
Biophysical Journal, Feb. 2025, Peer-reviewed

Computational biophysics of atomic force microscopy—an IUPAB-sponsored workshop
Damien Hall; Holger Flechsig; Takashi Sumikama
Biophysical Reviews, 22 Dec. 2023, Peer-reviewed, Last author

High-speed AFM reveals fluctuations and dimer splitting of the N-terminal domain of GluA2-γ2
Ayumi Sumino; Takashi Sumikama; Yimeng Zhao; Holger Flechsig; Kenichi Umeda; Noriyuki Kodera; Motoyuki Hattori; Mikihiro Shibata
bioRxiv, 20 Dec. 2023, Lead author

Interchannel dimerization of the dissociated voltage-sensor domains of voltage-gated Na+ channels in the resting state
Ayumi Sumino; Takashi Sumikama; Mikihiro Shibata; Katsumasa Irie
Research Square, 09 May 2023

Dissociation and inter-channel dimerization of voltage-sensor domains (VSD) of voltage-gated Na+ channel in the resting state
Ayumi Sumino; Takashi Sumikama; Leonardo Puppulin; Mikihiro Shibata; Katsumasa Irie
Journal of Physiological Sciences, May 2023, Peer-reviewed

Biophysical Reviews Issue Focus call: Computational biophysics of atomic force microscopy
Takashi Sumikama; Damien Hall; Holger Flechsig
Biophysical Reviews, 01 Feb. 2023, Peer-reviewed, Lead author

The structural basis of the divalent cation blocking on tetrameric cation channel
Katsumasa Irie; Yoshinori Oda; Takashi Sumikama; Atsunori Oshima; Yoshinori Fujiyoshi
Research Square, 11 Jan. 2023

Evolutionarily acquired activity-dependent transformation of the CaMKII holoenzyme
Shotaro Tsujioka; Ayumi Sumino; Yutaro Nagasawa; Takashi Sumikama; Holger Flechsig; Leonardo Puppulin; Takuya Tomita; Yudai Baba; Takahiro Kakuta; Tomoki Ogoshi; Kenichi Umeda; Noriyuki Kodera; Hideji Murakoshi; Mikihiro Shibata
bioRxiv, 10 Jan. 2023

Molecular mechanism of ion selectivity through the KcsA K+ channel
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2020, Peer-reviewed, Lead author

Computing Atomic Force Microscopy Images of Chromosomes using Polymer Simulation
Takashi Sumikama
Biophysical Journal, Feb. 2020, Peer-reviewed, Lead author

Induced-Fit Pathway Accelerated Binding of Agitoxin-2 to A K+ Channel Imaged by HS-AFM
Ayumi Sumino, Takashi Sumikama, Takayuki Uchihashi, Shigetoshi Oiki
Biophysical Journal, Feb. 2020, Peer-reviewed

An alternative permeation mechanism through the K+ channel
Takashi Sumikama; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2018, Peer-reviewed, Lead author

A Letter to Editors —A Proposal for SEIBUTSU BUTSURI—
Takashi SUMIKAMA
Seibutsu Butsuri, 2018, Peer-reviewed, Lead author, Last author, Corresponding author

High-speed AFM revealed single-molecule blocking dynamics of a scorpion toxin on the KcsA potassium channel
Ayumi Sumino; Takayuki Uchihashi; Takashi Sumikama; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2017, Peer-reviewed

A 3-D movie of ion permeation through ion channel at the atomic level filmed by computer simulation
Takashi Sumikama; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2017, Peer-reviewed, Lead author

K+ Occupancy in the Cavity Determines the Ion Permeation Rate through the KV1.2 Channel
Takashi Sumikama; Shigetoshi Oiki
Biophysical Journal, Feb. 2017, Peer-reviewed, Lead author

Bridging ion permeation and ion selectivity through K+ channel
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2016, Peer-reviewed, Lead author

Visualization of fluctuating motions of the selectivity filter in the potassium channel: A computational study.
Takashi Sumikama; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2015, Peer-reviewed, Lead author

2P221 Analysis on Ion Permeation Pattern through the Kv1.2 Channel(13C. Biological & Artificial membrane:Excitation & Channels,Poster)
Sumikama Takashi; Saito Shinji; Oiki Shigetoshi
Seibutsu Butsuri, 2014

2P222 The oriented water in the central cavity of the K^+ channel enhances the electrostatic attraction(13C. Biological & Artifical membrane: Excitation & Channels,Poster)
Sumikama Takashi; Saito Shinji; Oiki Shigetoshi
Seibutsu Butsuri, 2013

2SCA-01 Gating-related clustering-dispersion dynamics of the KcsA potassium channel on the membrane(2SCA Single Ion Channels updated : From elementary processes to disease treatments,Symposium,The 51th Annual Meeting of the Biophysical Society of Japan)
Sumino Ayumi; Yamamoto Daisuke; Sumikama Takashi; Iwamoto Masayuki; Dewa Takehisa; Oiki Shigetoshi
Seibutsu Butsuri, 2013

Dependency of Ion Permeation Pattern on K+ Concentration through the Kv1.2 Channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Biophysical Journal, Jan. 2013, Peer-reviewed, Lead author

Proton permeation and pH-dependent gating of polytheonamide B
Yuka Matsuki; Kenichiro Mita; Takashi Sumikama; Masayuki Iwamoto; Hirofumi Shimizu; Shigetoshi Oiki
Journal of Physiological Sciences, 2013, Peer-reviewed

Role of the central cavity in ion permeation through the K+ channel: Ion permeation mechanism visualized by computational simulation.
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Journal of Physiological Sciences, Mar. 2012, Peer-reviewed, Lead author

3PT165 Selective Ion Permeation though the Kv1.2 Channel(The 50th Annual Meeting of the Biophysical Society of Japan)
Sumikama Takashi; Saito Shinji; Oiki Shigetoshi
Seibutsu Butsuri, 2012

2G1558 Direct Observation of Ion Entryway of Potassium Channel KcsA in Lipid Bilayer by Atomic Force Microscopy(Biological & Artificial Membranes,Oral Presentation,The 50th Annual Meeting of the Biophysical Society of Japan)
Sumino Ayumi; Sumikama Takashi; Iwamoto Masayuki; Dewa Takahisa; Oiki Shigetoshi
Seibutsu Butsuri, 2012

Role of Central Cavity in Ion Permeation through the Kv1.2 Channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Biophysical Journal, Jan. 2012, Peer-reviewed, Lead author

3P234 Concentration Dependence of Microscopic Mechanism of Ion Permeation through K^+ Channel(Biol & Artifi memb.: Excitation & Channels,The 48th Annual Meeting of the Biophysical Society of Japan)
Sumikama Takashi; Oiki Shigetoshi; Saito Shinji; Ohmine Iwao
Seibutsu Butsuri, 2010

Microscopic Mechanism of Ion Permeation through K+ Channel
Takashi Sumikama; Iwao Ohmine; Shigetoshi Oiki
Biophysical Journal, Jan. 2010, Peer-reviewed, Lead author

3P-200 Theoretical Study on Ion Permeation Mechanism in Model Channel and K^+ Channel(The 46th Annual Meeting of the Biophysical Society of Japan)
Sumikama Takashi; Sato Hiroko; Saito Shinji; Ohmine Iwao
Seibutsu Butsuri, 2008

3P126 Theoretical Analysis of Ion Permeation Mechanism in Nanopore(Water, hydration, and elctrolytes,Poster Presentations)
Sumikama Takashi; Saito Shinji; Ohmine Iwao
Seibutsu Butsuri, 2007

1P572 Mechanism of Ion Permeation in Model Channel; Free Energy Surface and Dynamics of K^+ Ion Transport in Anion-doped Carbon Nanotube(27. Molecular dynamics simulation,Poster Session,Abstract,Meeting Program of EABS & BSJ 2006)
Sumikama Takashi; Saito Shinji; Ohmine Iwao
Seibutsu Butsuri, 2006

2P260 Theoretical Study of Ion Translocation in Carbon Nanotube as an Analogy of Ion Channel
Sumikama T.; Saito S.; Ohmine I.
Seibutsu Butsuri, 2005

2P222 Theoretical Study of Ion Translocation in Carbon Nanotube
Sumikama T.; Saito S.; Ohmine I.
Seibutsu Butsuri, 2004

Presentations

Single-molecule imaging of Francisella novicida Cas9 by High-speed AFM
Mikihiro Shibata; Romain Amyo; Holger Flechsig; Takashi Sumikama
ACS Fall 2026, 26 Aug. 2026

The dynamic basis of G-protein recognition and activation by a GPCR
Kazuhiro Kobayashi; Kouki Kawakami; Toshiki Matsui; Shun Yokoi; Masahiro Fukuda; Tomohiro Narita; Hiroki Arai; Mai Tanbo; Takashi Sumikama; Manae Tatsumi; Keitaro Yamashita; Junki Koyanagi; Mai Kugawa; Hisako Ikeda; Ayumi Sumino; Ayori Mitsutake; Asuka Inoue; Hideaki Kato
Annual Meeting of the Protein Science Society of Japan, 18 Jun. 2026

Development of a United-Atom Force Field of Ionic Liquid to Reproduce 3D Molecular Distributions Measured by 3D Scanning Force Microscopy
Takashi Sumikama; Takahiko Ikarashi; Kaito Hirata; Ryo Sakakibara; Takumi Yoshino; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
Materials Research Society, 28 Apr. 2026

非競合阻害剤結合状態におけるAMPA受容体のナノ動態の解明
佐藤慶典; 炭竈享司; Yimeng Zhao; 服部素之; 柴田幹大
生物物理学会中部支部会, 18 Mar. 2026

数理モデルシミュレーションを用いたCaMKIIクラスター形成ダイナミクスの考察
松島啓介; 鈴木大晴; 炭竈享司; 柴田幹大
生物物理学会中部支部会, 18 Mar. 2026

高速AFMによるCaMKIIαの自己組織化によるメゾスケールクラスター形成の観察
鈴木大晴; 炭竈享司; 村越秀治; 柴田幹大
生物物理学会中部支部会, 18 Mar. 2026

Characterising the Molecular Origin of Gating and Permeability of Small Molecules through Pannexin-2 for Channel-Targeted Therapies
Kunal Rai; Himanshu Joshi; Takashi Sumikama
Annual Meeting of the Physiological Society of Japann, 12 Mar. 2026

Imaging of Mesoscopic-Scale Dynamics of CAMKII Clusters by High-Speed AFM
Taisei Suzuki; Takashi Sumikama; Keisuke Matsushima; Hideji Murakoshi; Mikihiro Shibata
Biophysical Society 70th Annual Meeting, 23 Feb. 2026

Adjacent β Subunits in CAMKIIα/β Hetero-Oligomers Enable Sustained Acctivation and F-Actin Binding Revealed by HS-AFM and Mathematical Modeling
Keisuke Matsushima; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
Biophysical Society 70th Annual Meeting, 23 Feb. 2026

Hi-CデータからA/Bコンパートメントへの新たな分類手法に基づくヘテロクロマチンとユークロマチンの解釈
炭竈享司; 三浦尚; 平谷伊智朗; 福間剛士
日本分子生物学会, 05 Dec. 2025

高速AFMと数理モデルによるCaMKIIα/βヘテロ12量体のサブユニット配置とF-actin局在化機構の機能予測
松島啓介; 炭竈享司; 村越秀治; 柴田幹大
日本分子生物学会, 04 Dec. 2025

高速AFMによる活性化状態依存的CaMKIIクラスター形成ダイナミクスの観察と分子間相互作用の解析
鈴木大晴; 炭竈享司; 村越秀治; 柴田幹大
日本分子生物学会, 03 Dec. 2025

液中オープンループ電位顕微鏡による分子配向検出実験に向けたHOPG基板上への鉛フタロシアニン薄膜作成条件の検討
小川大翔; 炭竈享司; 福間剛士
日本応用物理学会, 09 Sep. 2025

3次元走査型力顕微鏡によるイオン液体/SrTiO₃界面構造のバイアス依存性の調査
張皓輝; 炭竈享司; 宮田一輝; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 09 Sep. 2025

Visualizing Bias-Dependent Changes in Ionic Liquid-SrTiO₃ Interface Structures by 3D scanning force microscopy
Haohui Zhang; Takashi Sumikama; Kazuki Miyata; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
The 26th International Conference on Non-contact Atomic Force Microscopy (NC-AFM2025), 06 Aug. 2025

A novel classification method for A/B compartments from Hi-C data providing insight into heterochromatin and euchromatin organization
Takashi Sumikama
International Symposium: Genome Architecture and Function, 25 Nov. 2025

理論・シミュレーションと実験の狭間
炭竈享司
凝縮系の構造・反応ダイナミクスから機能創発への展開, 31 Oct. 2025, Invited

Structural and Functional Analysis of the HBx-DDB1 Complex Involved in Transcriptional Regulation of Hepatitis B Virus
Hiroki Tanaka; Joao Diogo Dias; Basile Jay; Shunsuke Kita; Mina Sasaki; Christine Neuveu; Takashi Sumikama; Mikihiro Shibata; Katsumi Maenaka; Shinichi Machida
Annual Meeting of the Japanese Society for Virology, 30 Oct. 2025

Theoretical considerations based on high-speed atomic force microscopy movies to estimate biomolecular functions
Takashi Sumikama
Annual Meeting of the Biophysical Society of Japan, 25 Sep. 2025, Invited

Architecture and Dynamics of CaMKIIα/β heterooligomers revealed by High-Speed AFM
Keisuke Matsushima; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
Annual Meeting of the Biophysical Society of Japan, 24 Sep. 2025

High-speed AFM revealed dynamics of CaMKII clusters through intermolecular interactions
Taisei Suzuki; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
Annual Meeting of the Biophysical Society of Japan, 24 Sep. 2025

3次元原子間力顕微鏡を用いたヒトの染色体内部計測で取得されるフォースカーブの探針走査速度依存性の検証
水野雄介; 児島亮平; 炭竈享司; 目黒牧子; 岡野直子; 堀家慎一; 平原佳織; 宮澤佳甫; 福間剛士
日本応用物理学会, 23 Mar. 2024

Clustering mechanism of AMPA receptor revealed by high-speed atomic force microscopy observation
Takashi Sumikama; Ayumi Sumino; Yimeng Zhao; Motoyuki Hattori; Mikihiro Shibata
Annual Meeting of the Physiological Society of Japan, 18 Mar. 2025

Voltage Sensors of Na+ Channels Dissociate from the Pore Domain and Form Inter-Channel Dimers in the Resting State: Implications for Cooperative Activation
Ayumi Sumino; Takashi Sumikama; Mikihiro Shibata; Katsumasa Irie
Annual Meeting of the Physiological Society of Japan, 17 Mar. 2025

高速AFMによるCaMKIIヘテロ12量体の一分子イメージング
松島啓介; 炭竈享司; 村越秀治; 柴田幹大
生物物理学会中部支部会, 18 Mar. 2025

高速AFMによるCaMKII集合体のナノ構造観察
鈴木大晴; 炭竈享司; 村越秀治; 柴田幹大
生物物理学会中部支部会, 18 Mar. 2025

Visualizing single-molecule nanodynamics of AMPA-type glutamate receptors by high-speed atomic force microscopy
Mikihiro Shibata; Ayumi Sumino; Takashi Sumikama; Yimeng Zhao; Motoyuki Hattori
Biophysical Society 69th Annual Meeting, 18 Feb. 2025

Theoretical and/or Computational Life Sciences for Experiments
Takashi Sumikama
Riken R-CCS Café, 20 Dec. 2024

Mechanism of catalytic function of biological ion channel: molecular dynamics simulations
Takashi Sumikama
12th Singapore International Chemistry Conference, 10 Dec. 2024

Development of United Atom Model for Ionic Liquids and Studying Their Structure and Dynamics on Gold Surfaces Under Various Bias Voltages
Md Fahim Newaz; Haohui Zhang; Takashi Sumikama; Takeshi Fukuma
Materials Research Society, 03 Dec. 2024

Imaging mechanism of three-dimensional atomic force microscopy of flexible molecules in non-equilibrium processes
Takashi Sumikama
32nd International Colloquium on Scanning Probe Microscopy (ICSPM32), 20 Nov. 2024

原子間力顕微鏡を用いた細胞内オルガネラの３次元構造の可視化技術とその理論基盤
炭竈享司
極限環境生物学会シンポジウム, 04 Nov. 2024, Invited

Phosphorylation-dependent clustering mechanism of CaMKII revealed by high-speed AFM
Taisei Suzuki; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
Science for Neuroscience, 09 Oct. 2024

Single-molecule nanodynamics of AMPA-type glutamate receptors by high-speed atomic force microscopy
Mikihiro Shibata; Ayumi Sumino; Takashi Sumikama; Motoyuki Hattori
Science for Neuroscience, 07 Oct. 2024

Computational simulations supporting observations by atomic force microscopy
Takashi Sumikama
The Second International Symposium of Nano Life Science: Nano Biotechnology, Biophysics and Computation (NanoBioCoM2024), 26 Sep. 2024, Rencontres du Vietnam, Invited

Insights into chromatin organization obtained by a rapid classification of A/B compartments from Hi-C data
Takashi Sumikama; Hisashi Miura; Ichiro Hiratani; Takeshi Fukuma
21st IUPAB & 62nd BSJ Joint Congress 2024, 28 Jun. 2024

A Machine Learning Approach to Classify Force Curves of Nuclear Elasticity Measurements
Fahim M. Newaz; Sivashanmugan Kundan; Takashi Sumikama; Eishu Hirata; Takeshi Fukuma
21st IUPAB & 62nd BSJ Joint Congress, 27 Jun. 2024

HS-AFM reveals the structural role of CaMKII in synaptic structural plasticity
Taisei Suzuki; Takashi Sumikama; Hideji Murakoshi; Mikihiro Shibata
21st IUPAB & 62nd BSJ Joint Congress 2024, 25 Jun. 2024

Development of the nano imaging technique for elucidating 3D internal structure of mitotic chromosomes by in-cell AFM
Ryohei Kojima; Keisuke Miyazawa; Takashi Sumikama; Makiko Meguro; Konan Imadate; Naoko Okano; Shin-ichi Horike; Kaori Hirahara; Takeshi Fukuma
学術変革領域（クロススケール新生物学）第4回領域会議, 30 May 2024

Computational and theoretical studies in collaboration with experiments to elucidate biological phenomena
Takashi Sumikama
International Conference on Theoretical and High Performance Computational Chemistry 2024, 21 Apr. 2024, Computer Network Information Center, Chinese Academy of Sciences (CNIC, CAS), Huazhong Agricultural University, Invited

オープンループ電位顕微鏡を用いたイオン液体/金(111)界面における分子スケール電荷分布の電極電位依存性の調査
五十嵐陽彦; 炭竈享司; 平田海斗; 宮澤佳甫; 清水直; 岩佐義宏; 宮田一輝; 福間剛士
日本応用物理学会, 23 Mar. 2024, Invited

高速原子間力顕微鏡による膜タンパク質のナノスケールイメージング
柴田幹大; 角野歩; 炭竈享司
日本解剖学会, 21 Mar. 2024, Invited

高速AFMによるスパイン構造的可塑性におけるCaMKIIの構造的役割の解明
鈴木大晴; 炭竈享司; 村越秀治; 柴田幹大
生物物理学会中部支部会, 19 Mar. 2024

Unrevealing the mechanism underlying 3D-AFM imaging of unsupported structures by AFM experiment and MD simulations
Mohammad S. Alam; Marcos Penedo; Takashi Sumikama; Keisuke Miyazawa; Takeshi Fukuma
31st International Colloquium on Scanning Probe Microscopy (ICSPM31), 08 Dec. 2023

Molecular-scale 3D Imaging of Ionic Liquid/Au Interfaces with Different Ionic Liquid Cations by 3D Scanning Force Microscopy
Haohui Zhang; Takahiko Ikarashi; Ryo Sakakibara; M. Fahim; M. Newaz; Takashi Sumikama; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
31st International Colloquium on Scanning Probe Microscopy (ICSPM31), 08 Dec. 2023

A Machine Learning for the Classification of Force Curves in Nuclear Elasticity Measurement
Fahim M. Newaz; Sivashanmugan Kundan; Takashi Sumikama; Eishu Hirata; Takeshi Fukuma
31st International Colloquium on Scanning Probe Microscopy (ICSPM31), 07 Dec. 2023

Selective ion permeation through the K+ channels and novel gating mechanism of the Na+ channel
Takashi Sumikama
Annual Meeting of the Biophysical Society of Japan, 15 Nov. 2023, Invited

Molecular mechanism of selective ion permeation through the K+ channels: A computational study
Takashi Sumikama
The 10th Federation of the Asian and Oceanian Physiological Societies Congress, 01 Nov. 2023, Invited

Molecular-Scale 3D Imaging of Force and Potential Distributions at Ionic Liquid - Au Interfaces with Variable Tip/Sample Bias Voltages
Takeshi Fukuma; Takahiko Ikarashi; Takashi Sumikama; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa
24th International Conference on Non-contact Atomic Force Microscopy, 28 Sep. 2023

AFM image computations by force calculation and combined studies of AFM and MD simulations
Takashi Sumikama
The First International Symposium of Nano Life Science: Nano Biotechnology, Biosensor, Computation (NanoBiocom2023), 18 Sep. 2023, Invited

オープンループ電位顕微鏡によるイオン液体/金電極界面におけるサブナノメートルスケール電荷分布の可視化
五十嵐陽彦; 炭竈享司; 平田海斗; 宮田一輝; 宮澤佳甫; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 22 Sep. 2023

スタティックモード3次元走査型力顕微鏡によるイオン液体/金(111)電極界面構造の電極電位依存性の調査
張皓輝; 五十嵐陽彦; 炭竈享司; 宮田一輝; 宮澤佳甫; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 22 Sep. 2023

Chromosome modeling by polymer simulation and comparison with 3D-AFM measurements
Takashi Sumikama
5th Genome Biophysics Seminar, 28 Aug. 2023, Invited

Molecular-Scale 3D-SFM Imaging of Ionic Liquid/Au Electrode Interface Structures and Its Tip/Sample Bias Dependence
Takahiko Ikarashi; Takashi Sumikama; Ryo Sakakibara; Takumi Yoshino; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
9th Multifrequency AFM conference, 14 Jun. 2023

Bias dependence of molecular-scale 3D structures at ionic liquid/Au interface investigated by three-dimensional scanning force microscopy
Takahiko Ikarashi; Takashi Sumikama; Ryo Sakakibara; Takumi Yoshino; Kazuki Miyata; Keisuke Miyazawa; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
EM-NANO2023, 06 Jun. 2023

A development of rapid classification method of A/B compartments based on Hi-C and an insight into structural dynamics of A/B compartments
Takashi Sumikama
第３回Hi-C研究会, 11 May 2023

Hi-C データからのヘテロクロマチンとユークロマチンの新規高速識別法とヘテロクロマチンとユークロマチンの直感的解釈
炭竈享司; 福間剛士
生物物理学会中部支部会, 31 Mar. 2023

イオン液体/金電極界面構造の分子スケール3D-SFM観察とその探針および電極電位依存性
五十嵐陽彦; 炭竈享司; 榊原涼; 吉野巧; 宮田一輝; 宮澤佳甫; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 16 Mar. 2023

Dissociation and inter-channel dimerization of voltage-sensor domains（VSD）of voltage-gated Na+ channel in the resting state
Ayumi Sumino; Takashi Sumikama; Leonardo Puppulin; Mikihiro Shibata; Katsumasa Irie
Annual Meeting of the Physiological Society of Japan, 14 Mar. 2023

A novel discrimination method of heterochromatin and euchromatin from Hi-C data and an interpretation of heterochromatin and euchromatin
Takashi Sumikama; Takeshi Fukuma
Annual Meeting of the Molecular Biology Society of Japan, 30 Nov. 2022

An fast classification method of heterochromatin and euchromatin through Hi-C data analysis
Takashi Sumikama
6th NanoLSI Symposium, 14 Nov. 2022

Development of a Method for Visualizing Nanometer-Scale Three-Dimensional Structures of Chromosomes by Three-Dimensional Atomic Force Microscopy
Ryohei Kojima; Keisuke Miyazawa; Keigo Teramae; Takashi Sumikama; Makiko Meguro; Konan Imadate; Naoko Okano; Shin-ichi Horike; Kaori Hirahara; Takeshi Fukuma
AVS 68th INTERNATIONAL SYMPOSIUM & EXHIBITION, 07 Nov. 2022

Simulations vs. experiments – three case studies
Takashi Sumikama
Sci-Mix in Kanazawa 2022: Change the World by Green Innovation and Science, 07 Oct. 2022, Invited

An intuitive discrimination method of heterochromatin and euchromatin from Hi-C data
Takashi Sumikama; Takeshi Fukuma
Annual Meeting of the Biophysical Society of Japan, 30 Sep. 2022

Computation of three-dimensional atomic force microscopy images
Takashi Sumikama
Computational Biophysics of Atomic Force Microscopy – A Lecture-based Workshop, 20 Sep. 2022, Invited

3次元走査型力顕微鏡によるDEME-TFSIとBMI-TFSIイオン液体/金(111)電極界面構造のバイアス依存性の比較
張皓輝; 五十嵐陽彦; 榊原涼; 炭竈享司; 宮田一輝; 宮澤佳甫; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 21 Sep. 2022

細胞核内部の3 次元構造を可視化する3D-AFMの開発
児島亮平; 宮澤佳甫; Mohammad S. Alam; Sivashanmugan Kundan; 炭竈享司; 太村理沙; 福間剛士
日本応用物理学会, 20 Sep. 2022

Visualizing 3D internal structure of cell nucleus by 3D-AFM
Ryohei Kojima; Keisuke Miyazawa; Mohammad S. Alam; Sivashanmugan Kudan; Takashi Sumikama; Risa Omura; Takeshi Fukuma
AFM BioMed Conference 2022, 30 Aug. 2022

Visualizing Bias-Dependent Changes in Ionic Liquid/Au Interface Structures by 3D Scanning Force Microscopy
Takahiko Ikarashi; Ryo Sakakibara; Takumi Yoshino; Keisuke Miyazawa; Takashi Sumikama; Kazuki Miyata; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
The 23rd International Conference on Non-contact Atomic Force Microscopy (NC-AFM 2022 conference), 02 Aug. 2022

Computational prediction of 3D-AFM image of biopolymers
Takashi Sumikama
学術変革領域（クロススケール新生物学）第２回領域会議, 28 Jul. 2022

Establishment of the method for visualizing 3D internal structure of Organelles by 3D-AFM
児島亮平; 宮澤佳甫; Mohammad S. Alam; Sivashanmugan Kundan; 寺前圭吾; 炭竈享司; 目黒牧子; 今立呼南; 岡野直子; 太村理沙; 堀家慎一; 平原佳織; 福間剛士
学術変革領域（クロススケール新生物学）第２回領域会議, 28 Jul. 2022

Na+ ions slowly permeate through the KcsA K+ channel along a tortuous path
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 18 Mar. 2022

Movies of binding and unbinding of biomolecules and analyses on them
Takashi Sumikama
5th NanoLSI Symposium, 01 Mar. 2022, Invited

Simulation: Computational Microscope
Takashi Sumikama
2nd WPI NanoLSI-iCeMS Joint Symposium on Nanometrology and Advanced Materials, 13 Jan. 2022, Invited

Development of 3D-AFM to visualize nanometer-scale three-dimensional structures of chromosomes in liquid
児島亮平; 宮澤佳甫; 寺前圭吾; 炭竈享司; 目黒牧子; 今立呼南; 岡野直子; 堀家慎一; 平原佳織; 福間剛士
学術変革領域（クロススケール新生物学）キックオフミーティング, 13 Dec. 2021

Visualization of nanometer-scale three-dimensional structures of chromosomes by three-dimensional atomic force microscopy
Ryohei Kojima; Keisuke Miyazawa; Keigo Teramae; Takashi Sumikama; Makiko Meguro; Konan Imadate; Naoko Okano; Shin-ichi Horike; Kaori Hirahara; Takeshi Fukuma
29th International Colloquium on Scanning Probe Microscopy (ICSPM29), 09 Dec. 2021

Investigation of Subnanometer-Scale Structures of Ionic Liquid/Au Electrode Interfaces by 3D-SFM
Takahiko Ikarashi; Ryo Sakakibara; Takumi Yoshino; Keisuke Miyazawa; Takashi Sumikama; Kazuki Miyata; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
29th International Colloquium on Scanning Probe Microscopy (ICSPM29), 09 Dec. 2021

Establishment of a method for visualizing nanometer-scale three-dimensional structures of chromosomes by three-dimensional atomic force microscopy
Ryohei Kojima; Keisuke Miyazawa; Makiko Meguro; Takashi Sumikama; Konan Imadate; Naoko Okano; Shin-ichi Horike; Kaori Hirahara; Takeshi Fukuma
The 9 International Symposium on Surface Science (ISSS-9), 29 Nov. 2021

Investigation of Subnanometer-Scale Structures of Ionic Liquid/Au Electrode Interfaces by 3D-SFM
Takahiko Ikarashi; Ryo Sakakibara; Takumi Yoshino; Keisuke Miyazawa; Takashi Sumikama; Kazuki Miyata; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
The 9 International Symposium on Surface Science (ISSS-9), 29 Nov. 2021

A theoretical prediction of dependency of three-dimensional atomic force microscopy images of biopolymers on scanning velocity
Takashi Sumikama; Filippo Federici Canova; David Z. Gao; Adam S. Foste; Takeshi Fukuma
Annual meeting of the Biophysical Society of Japan, 25 Nov. 2021

3D-SFMを用いたバイアス電圧に依存して変化するイオン液体/金電極界面構造のサブナノスケール構造解析
五十嵐陽彦; 榊原涼; 吉野巧; 宮澤佳甫; 炭竈享司; 宮田一輝; 清水直; 岩佐義宏; 福間剛士
第11回イオン液体討論会, 18 Nov. 2021

カリウムチャネルのK+/Na+選択性分子機構
三田建一郎; 炭竈享司; 岩本真幸; 老木成稔
生理学研究所研究会「細胞システム理解のためのシグナル応答原理解明の最前線」, 16 Sep. 2021

3D-SFMを用いたバイアス電圧に依存して変化するイオン液体/金電極界面構造のサブナノスケール構造解析
五十嵐陽彦; 榊原涼; 吉野巧; 宮澤佳甫; 炭竈享司; 宮田一輝; 清水直; 岩佐義宏; 福間剛士
電気化学秋季大会, 08 Sep. 2021

Analyzing high-speed atomic force microscopy movies by event-oriented analysis
Takashi Sumikama
日本応用物理学会, 17 Mar. 2021

Visualization of nanometer-scale three-dimensional structures chromosomes with three-dimensional atomic force microscopy
Ryohei Kojima; Keisuke Miyazawa; Takashi Sumikama; Makiko Meguro; Konan Imadate; Naoko Okano; Shin-ichi Horike; Kaori Hirahara; Takeshi Fukuma
The 28th International Colloquium on Scanning Probe Microscopy (ICSPM28), 10 Dec. 2020

Investigation of Subnanometer-Scale Structures of Ionic Liquid/Au Electrode Interfaces by 3D-SFM
Ryo Sakakibara; Takahiko Ikarashi; Takumi Yoshino; Keisuke Miyazawa; Takashi Sumikama; Kazuki Miyata; Sunao Shimizu; Yoshihiro Iwasa; Takeshi Fukuma
The 28th International Colloquium on Scanning Probe Microscopy (ICSPM28), 10 Dec. 2020

Mechanism of ion permeation and selectivity through the K+ channel: A molecular dynamics study
Takashi Sumikama
Frontiers of Computational Physics from meV to MeV, 08 Dec. 2020, Invited

Simulated three-dimensional atomic force microscopy of chromosomes in mitotic phase and its comparison with experiments
Takashi Sumikama; Keisuke Miyazawa; Makiko Meguro-Horike; Ryohei Kojima; Naoko Okano; Shin-ichi Horike; Adam S. Foster; Takeshi Fukuma
Annual Meeting of the Molecular Biology Society of Japannual, 04 Dec. 2020

3D-SFMを用いたバイアス電圧に依存して変化するイオン液体/金電極界面構造のサブナノスケール構造解析
五十嵐陽彦; 榊原涼; 吉野巧; 宮澤佳甫; 炭竈享司; 宮田一輝; 清水直; 岩佐義宏; 福間剛士
表面真空学会, 21 Nov. 2020

Development of 3D-AFM for visualizing 3D structures of inside of chromosomes with nanometer-scale resolution
Keisuke Miyazawa; Makiko Meguro-Horike; Shin-ichi Horike; Takashi Sumikama; Taku Higasayama; Masayuki Harada; Takeshi Fukuma
8th Multifrequency AFM Conference, 28 Oct. 2020

カリウムチャネル選択性フィルタ内のイオン選択的ダイナミクス
三田建一郎; 炭竈享司; 岩本真幸; 老木成稔
生理研研究会「イオンチャネルと生体膜のダイナミクス：構造生物学の先にあるもの」, 06 Oct. 2020

A theoretical prediction of 3D atomic force microscopy image of chromosomes in mitotic phase and its comparison with experiments
Takashi Sumikama; Keisuke Miyazawa; Makiko Meguro-Horike; Ryohei Kojima; Naoko Okano; Shin-ichi Horike; Adam S. Foster; Takeshi Fukuma
Annual Meeting of the Biophysical Society of Japan, 16 Sep. 2020

Molecular mechanism of ion selectivity through the KcsA K+ channel
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 18 Mar. 2020

3次元原子間力顕微鏡を用いた染色体のナノスケール3次元内部構造観察
児島亮平; 宮澤佳甫; 岡野直子; 目黒牧子; 堀家慎一; 炭竈享司; 日笠山拓; 今立呼南; 平原佳織; 福間剛士
日本応用物理学会, 13 Mar. 2020

3D-SFMによるバイアス電圧に依存して変化するイオン液体/金電極界面構造のサブナノスケール３次元観察
榊原涼; 吉野巧; 五十嵐陽彦; 宮澤佳甫; 炭竈享司; 宮田一輝; 清水直; 岩佐義宏; 福間剛士
日本応用物理学会, 13 Mar. 2020

Computing Atomic Force Microscopy Images of Chromosomes Using Polymer Simulation
Takashi Sumikama; Adam S. Foster; Takeshi Fukuma
Biophysical Society 64th Annual Meeting, 19 Feb. 2020

Induced-fit pathway accelerated binding of Agitoxin-2 to a K+ Channel imaged by HS-AFM
Ayumi Sumino; Takashi Sumikama; Takayuki Uchihashi; Shigetoshi Oiki
Biophysical Society 64th Annual Meeting, 17 Feb. 2020

Toward elucidating a relation between computed atomic force microscopy image and actual structure using machine learning
Takashi Sumikama; Niko Oinonen; Fedor Urtev; Adam. S. Foster; Takeshi Fukuma
The 1st International Conference on Big Data and Machine Learning in Microscopy, 16 Jan. 2020

A theoretical prediction of 3D atomic force microscopy image of chromosomes in the interphase and mitotic phase
Takashi Sumikama; Keisuke Miyazawa; Adam S. Foster; Takeshi Fukuma
Annual Meeting of the Molecular Biology Society of Japannual, 06 Dec. 2019

高速AFMによるサソリ毒ペプチドが効率的にK+チャネルを阻害する仕組みの解明
角野歩; 炭竈享司; 内橋貴之; 老木成稔
日本分子生物学会, 05 Dec. 2019, Invited

Computational prediction of 3D-AFM images of chromosomes
Takashi Sumikama
Joint UBI-NanoLSI workshop "Trends in Molecular Biophysics of Living Cells", 20 Nov. 2019, Invited

Development of three-dimensional atomic force microscopy (3D-AFM) to visualize nanometer-scale three-dimensional structures of chromosomes
Keisuke Miyazawa; Makiko Meguro; Shin-ichi Horike; Takashi Sumikama; Taku Higasayama; Masayuki Harada; Takeshi Fukuma
Annual Meeting of the Biophysical Society of Japan, 25 Sep. 2019

A theoretical study on a relationship between 3D atomic force macroscopy image and structure of chromosomes
Takashi Sumikama; Keisuke Miyazawa; Adam S. Foster; Takeshi Fukuma
Annual Meeting of the Biophysical Society of Japan, 25 Sep. 2019

染色体のナノスケール3次元立体構造観察のための3次元原子間力顕微鏡（3D-AFM）の開発
宮澤佳甫; 目黒牧子; 堀家慎一; 炭竈享司; 中山響介; 日笠山拓; 原田昌征; 児島亮平; 福間剛士
日本応用物理学会, 18 Sep. 2019

分子シミュレーションで見る毒の作用機序：海綿由来毒ポリセオナミドの細胞膜への挿入
炭竈享司; Mahroof Kalathingal; 老木成稔; 斉藤真司
トキシンシンポジウム, 12 Sep. 2019

3D-AFM像の理論予測とHS-AFMの動画解析
炭竈享司
第2回CREST会議（研究課題：高速原子間力顕微鏡１分子計測のデータ同化による生体分子4次元構造解析法の開発）, 29 Mar. 2019, Invited

染色体の3D-AFM像の理論予測
炭竈享司; 福間剛士
生物物理学会中部支部会, 26 Mar. 2019

Towards elucidating the physical origin of force in AFM measurements and a method analyzing dynamics observed by HS-AFM
Takashi Sumikama
WPI-NanoLSI workshop “Trends in Computational Molecular Biophysics”, 04 Nov. 2018, Invited

チャネル機能が見える：KcsA チャネルのイオン透過と新しい張力感受性モダリティ
岩本真幸; 炭竈享司; 浦久保博一; 老木成稔
生理研研究会「シグナル動態の可視化と操作に基づく多階層機能解析の新展開」, 28 Sep. 2018, Invited

Na+ ions permeate through the KcsA K+ channel slowly
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Anuual meeting of the Biophysical Society of Japan, 15 Sep. 2018

Studying ion channels in reconstituted membrane using atomic force microscopy
Ayumi Sumino; Takashi Sumikama; Takayuki Uchihashi; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 15 Sep. 2018, Invited

Origins Of Heat Generation On Mixing Water And Dimethyl Sulfoxide
Kazuko Mizuno; Takashi Sumikama; Yoshinori Tamai; Masahiko Tani
43rd International Conference on Infrared, Millimeter, and Terahertz Waves (IRMMW-THz), 13 Sep. 2018

K+チャネルでのイオンの透過と選択性の誤謬：どこで何を間違えたか？
炭竈享司
蛋白研研究会「構造情報に基づいた膜イオン輸送タンパク質の生理機能の解明に向けて」, 04 Sep. 2018, Invited

Computational modeling of chromosomes and carbon nanotubes as a probe of atomic force microscopy
Takashi Sumikama; Keisuke Miyazawa; Taku Higasayama; Kyosuke Nakayama; Masayuki Harada; Takeshi Fukuma
Biophysical Society Thematic Meeting on the Genome Biophysics: Integrating Genomics and Biophysics to Understand Structural and Functional Aspects of Genomes, 20 Aug. 2018

KcsAチャネルでのK+とNa+の選択的透過のMDシミュレーションによる再現
炭竈享司
第3回イオンチャネル研究会チャネルフェニックス, 19 Jul. 2018, Invited

An alternative permeation mechanism through the K+ channel
Takashi Sumikama; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 28 Mar. 2018

高速AFMによるサソリ毒ペプチドとK+チャネルの結合動態解析
角野歩; 炭竈享司; 内橋貴之; 老木成稔
生物物理学会中部支部会, 05 Mar. 2018

イオンチャネルにおけるノックオン機構は本当に重要か？ーその2ー
炭竈享司; 老木成稔
生物物理学会中部支部会, 05 Mar. 2018

Knock-on is not a canonical mechanism for K+ permeation through potassium channels
Takashi Sumikama; Shigetoshi Oiki
Biophysical Society 62nd Annual Meeting, 19 Feb. 2018

Is Knock-on the Canonical Mechanism for the Ion Permeation through a Potassium Channel?
Takashi Sumikama; Shigetoshi Oiki
新学術領域研究「動的秩序と機能」第6回国際シンポジウム, 21 Jan. 2018

K+チャネルを通る電流のMichaelis-Menten様の飽和の分子論的説明
炭竈享司; 老木成稔
分子シミュレーション討論会, 29 Nov. 2017

Water orientation in nanocavity of the Kv1.2 channel and its role in ion permeation: A molecular dynamics study
Takashi Sumikama
Workshop on Reaction and Structural Dynamics in Condensed Phases, 13 Nov. 2017, Invited

何がK+チャネルでのイオンの透過速度を決めるか？：分子動力学シミュレーションによる研究
炭竈享司
ナノ計測勉強会2017, 12 Oct. 2017, Invited

HS-AFM revealed single-molecule blocking dynamics of a scorpion toxin on the KcsA potassium channel
Ayumi Sumino; Takayuki Uchihashi; Takashi Sumikama; Shigetoshi Oiki
Annual meeting of the Biophysical Society of Japan, 20 Sep. 2017

Spontaneous exits of ions from the KcsA channel
Takashi Sumikama; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 19 Sep. 2017

K+チャネルでのイオン透過におけるイオンと水分子の相互作用の重要性
炭竈享司
第2回イオンチャネル研究会チャネル七夕, 01 Aug. 2017, Invited

計算科学は膜イオン輸送の実験をどこまで再現できるか？：K+チャネルでのイオン透過
炭竈享司
蛋白研研究会「膜イオン輸送の学際研究：計算科学から医学まで」, 28 Jul. 2017, Invited

分布関数の時間発展で生体内現象を解析する：K+チャネルにおけるイオン透過を例に
炭竈享司
第16回計算分子化学コロキウム, 21 Jun. 2017, Invited

イオンチャネルでのイオン透過を分布関数の時間発展で捉える
炭竈享司; 老木成稔
理論化学討論会, 17 May 2017

イオンチャネルを通るイオン透過における水分子の役割：モデルチャネルとK+チャネルを例に
炭竈享司
福井大学遠赤外領域開発研究センターセミナー, 10 May 2017, Invited

A 3-D movie of ion permeation through ion channel at the atomic level filmed by computer simulation
Takashi Sumikama; Shigetoshi Oiki
Annual meeting of the Physiological Society of Japan, 28 Mar. 2017, Invited

水：その異常性とK+チャネルの機能との関係
炭竈享司
第3回「水シグナリングの分子動態から病態へ」研究会, 08 Mar. 2017, Invited

イオンチャネルにおけるノックオン機構は本当に重要か？
炭竈享司; 老木成稔
生物物理学会中部支部会, 06 Mar. 2017

K+ Occupancy in the Cavity Determines the Ion Permeation Rate through the Kv1.2 Channel
Takashi Sumikama; Shigetoshi Oiki
Biophysical Society 61st Annual Meeting, 15 Feb. 2017

Occupancy of a K+ in the nanocavity induces K+ ions' run through the Kv1.2 channel
Takashi Sumikama; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 25 Nov. 2016

Multi-scale Dynamics of Ion Permeation through Potassium Channels
Takashi Sumikama; Shigetoshi Oiki
International Symposium on Multi-scale Simulation of Condensed-phase Reacting Systems ( MSCRS2016 ), 11 Oct. 2016

チャネルを流れるイオンと水：ナノチューブの水・ナノ空洞の水
老木成稔; 炭竈享司; 松木悠佳; 岩本真幸
生理研研究会「膜システムの機能的・構造的統合」, 09 Sep. 2016, Invited

電流ー電圧曲線の意味を再考する
炭竈享司
第1回イオンチャネル研究会チャネルどんたく, 08 Jul. 2016, Invited

Bridging ion permeation and ion selectivity through K+ channel
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 22 Mar. 2016

Difference in ion permeation mechanism through the Kv1.2 and KcsA channels: A molecular dynamics study
Takashi Sumikama; Shigetoshi Oiki
The International Chemical Congress of Pacific Basin Societies, 17 Dec. 2015

A kinetic model describing punch-through of Na+ through KcsA potassium channel
Takashi Sumikama; Kenichiro Mita; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 15 Sep. 2015

Visualization of fluctuating motions of the selectivity filter in the potassium channel: A computational study
Takashi Sumikama; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 21 Mar. 2015

Fluctuation of carbonyl backbone of the selectivity filter of the Kv1.2 channel during K+ permeation
Takashi Sumikama; Shigetoshi Oiki
The 45th NIPS International Symposium, co-sponsored by The Journal of Physiology "Cutting-edge approaches towards the functioning mechanisms of membrane proteins", 27 Nov. 2014

疎水性水和の分子論的説明；弱い水素結合C-H•••OH2の形成が"アノマリー"をもたらす
水野和子; 炭竈享司; 玉井良則
第37回溶液化学シンポジウム, 13 Nov. 2014

Analysis on Ion Permeation Pattern through the Kv1.2 channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 26 Sep. 2014

弱い水素結合C—H•••OH2を用いる疎水性水和の分子論的説明
水野和子; 炭竈享司; 玉井良則
分子科学討論会, 21 Sep. 2014

The Ratio of Flux of Water Molecules over that of Ions through Ion Channel Reflects Interactions between Channel and Ions
Takashi Sumikama
OIST Workshops "Single Protein Dynamics in Cellulo 2014: Spatio-Temporal, Structural and Quantitative Analyses", 21 Apr. 2014

Hydrophobic Cavity in the Potassium Channels: Anomalous Nanospace Controlling Ion Conduction
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
3rd International Conference on Molecular Simulation, 19 Nov. 2013

Gating-related clustering-dispersion dynamics of the KcsA potassium channel on the membrane
Ayumi Sumino; Daisuke Yamamoto; Takashi Sumikama; Masayuki Iwamoto; Takehisa Dewa; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 29 Oct. 2013, Invited

The oriented water in the central cavity of the K+ channel enhances the electrostatic attraction
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 29 Oct. 2013

ジメチルスルホキシドの疎水性水和において観測される水の変角振動バンドの高波数シフト: CH•••OH2の関与と高波数シフトの原因
水野和子; 玉井良則; 炭竈享司
第36回溶液化学シンポジウム, 09 Oct. 2013

カリウムチャネルKcsAの脂質膜中での開閉構造と機能：一分子計測による統合的アプローチ
角野歩; 炭竈享司; 岩本真幸; 出羽毅久; 老木成稔
第23回バイオ・高分子シンポジウム, 24 Jul. 2013

Proton permeation and pH-dependent gating of polytheonamide B
Yuka Matsuki; Kenichiro Mita; Takashi Sumikama; Masayuki Iwamoto; Hirofumi Shimizu; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 29 Mar. 2013

Dependency of Ion Permeation Pattern on K+ Concentration through the Kv1.2 Channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Biophysical Society 57th Annual Meeting, 03 Feb. 2013

Selective Ion Permeation through the Kv1.2 channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 24 Sep. 2012

Role of the central cavity in ion permeation through the K+ channel: ion permeation mechanism visualized by computational simulation
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Annual Meeting of the Physiological Society of Japan, 29 Mar. 2012

Role of Central Cavity in Ion Permeation through the Kv1.2 Channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Biophysical Society 56th Annual Meeting, 27 Feb. 2012

K+チャネルでのイオンの捕獲半径とその濃度依存性
炭竈享司
分子高次系機能解明のための分子科学先端計測法の開拓による素過程的理解第１５回ミニ公開シンポジウム「イオンチャネル研究の現状とこれからについて考える」, 23 Jan. 2012, Invited

K+チャネルにおけるイオンの透過と選択性の交差点
炭竈享司
平成２３年度「若手研究者による分野間連携研究プロジェクト」NINS program for cross-disciplinary study 山中＆古谷プロジェクト冬の合同会議, 13 Jan. 2012, Invited

イオンチャネルの透過を捉える:流れるイオンと水分子の配列を見る
老木成稔; 岩本真幸; 炭竈享司; 三田建一郎
中部日本生理学会, 01 Nov. 2011

計算機シミュレーションで見るイオンチャネルにおけるイオン透過
炭竈享司; 老木成稔
中部日本生理学会, 01 Nov. 2011

K+チャネルでのイオン透過における中心空洞の役割とその濃度依存性
炭竈享司; 斉藤真司; 老木成稔
分子科学討論会, 22 Sep. 2011

Role of Central Cavity in Ion Permeation through K+ Channel
Takashi Sumikama; Shinji Saito; Shigetoshi Oiki
Annual Meeting of the Biophysical Society of Japan, 18 Sep. 2011

K+チャネルにおけるイオンの透過パターンの解析
炭竈享司
次世代スーパーコピュータプロジェクトナノ分野グランドチャレンジ研究開発ナノ統合拠点イオンチャネル No.2, 02 Dec. 2010, Invited

モデルチャネルでのイオン透過におけるエネルギーとエントロピーの役割
炭竈享司; 斉藤真司; 大峯巖
分子シミュレーション討論会, 24 Nov. 2010

Concentration Dependence of Microscopic Mechanism of Ion Permeation through K+ Channel
Takashi Sumikama; Shigetoshi Oiki; Shinji Saito; Iwao Ohmine
Annual Meeting of the Biophysical Society of Japan, 22 Sep. 2010

Microscopic Mechanism of Ion Permeation through K+ Channel
Takashi Sumikama; Shigetoshi Oiki; Iwao Ohmine
Biophysical Society 54th Annual Meeting, 22 Feb. 2010

NaCl水溶液の結晶化過程とテラヘルツ分光
炭竈享司; 斉藤真司; 味戸克裕; 久々津直哉
分子科学討論会, 21 Sep. 2009

K+チャネルにおけるイオン透過の微視的機構
炭竈享司
分子高次系機能解明のための分子科学先端計測法の開拓による素過程的理解第７回ミニ公開シンポジウム「イオンチャネルの構造ダイナミクスII」, 31 Aug. 2009, Invited

Roles of Ion Hydration in Chemistry: Freezing of NaCl solution and Ion Permeation through Model Channel
Takashi Sumikama; Shinji Saito; Katsuhiro Ajito; Iwao Ohmine
International Symposium on “Reaction Dynamics of Many-Body Chemical Systems”, 23 Jun. 2009

モデルチャネルとK+チャネルにおけるイオン透過機構の理論的解析
炭竈享司; 佐藤寛子; 斉藤真司; 大峯巖
日本生物物理学会, 05 Dec. 2008

モデルチャネルにおけるイオン透過のボトルネックとその起源
炭竈享司; 斉藤真司; 大峯巖
生理学研究所研究会「膜機能分子ダイナミクスの分子機構解明に向けて」, 05 Sep. 2008, Invited

負電荷を付加したカーボンナノチューブにおけるイオン透過機構の理論的解析
炭竈享司; 斉藤真司; 大峯巖
フラーレン・ナノチューブ総合シンポジウム, 05 Mar. 2008

Theoretical Analysis of Ion Permeation Mechanism in Nanopore
Takashi Sumikama; Shinji Saito; Iwao Ohmine
Annual Meeting of the Biophysical Society of Japan, 23 Dec. 2007

ナノポアにおけるイオン透過機構の理論的解析
炭竈享司; 斉藤真司; 大峯巖
分子科学討論会, 18 Sep. 2007

モデルチャネルにおけるイオン透過機構；アニオンを付加したカーボンナノチューブにおけるK+イオンのダイナミクスとイオン透過に関する自由エネルギー面
炭竈享司; 斉藤真司; 大峯巖
理論化学討論会, 17 May 2007

Mechanism of Ion Permeation in a Model Channel; Free Energy Surface and Dynamics of K+ Ion Transport in an Anion-Doped Carbon Nanotube
Takashi Sumikama; Shinji Saito; Iwao Ohmine
The 21st Century COE-RCMS International Conference on Elucidation and Creation of Molecular Functions, 10 Jan. 2007

Mechanism of Ion Permeation in a Model Channel; Free Energy Surface and Dynamics of K+ Ion Transport in an Anion-Doped Carbon Nanotube
Takashi Sumikama; Shinji Saito; Iwao Ohmine
Fifth East Asian Biophysics Symposium & Forty-Fourth Annual Meeting of the Biophysical Society of Japan, 14 Nov. 2006

モデルチャネルにおけるイオン透過機構の理論的研究
炭竈享司; 斉藤真司; 大峯巖
分子構造総合討論会, 21 Sep. 2006

イオンチャネルのアナロジーとしてのカーボンナノチューブにおけるイオン移動の理論的研究
炭竈享司; 斉藤真司; 大峯巖
日本生物物理学会, 24 Nov. 2005

イオンチャネルのアナロジーとしてのカーボンナノチューブにおけるイオン移動の理論的研究
炭竈享司; 斉藤真司; 大峯巖
分子構造総合討論会, 29 Sep. 2005

イオンチャネルのアナロジーとしてのカーボンナノチューブにおけるイオン移動の理論的研究
炭竈享司; 斉藤真司; 大峯巖
理論化学討論会, 17 May 2005

カーボンナノチューブにおけるイオン移動の理論的研究
炭竈享司; 斉藤真司; 大峯巖
日本生物物理学会, 14 Dec. 2004

Industrial Property Rights

特許5704630, 特開2012-005953, 特願2010-143847, 晶析過程制御方法および装置
味戸克裕; 上野祐子; 久々津直哉; 芳賀恒之; 斉藤真司; 炭竈享司

Awards

29 Mar. 2018
入澤宏・彩記念若手研究奨励賞（日本生理学会）

06 Mar. 2017
最優秀発表賞（日本生物物理学会中部支部）

Media Coverage

金沢大と生理学研究所、記憶を司るタンパク質CaMKIIのリング構造を発見
日本経済新聞, 電子版, 25 Dec. 2025, Paper

神経伝達タンパク質の動きを世界初撮影
北國新聞, 28面, 30 Aug. 2024, Paper

金大、脳の記憶や学習に重要なAMPA受容体のナノスケールでの動きを撮影成功
マイナビニュース, 27 Aug. 2024, Internet

High-speed atomic force microscopy reveals dynamic behavior of brain receptors
EurekAlert!, 26 Aug. 2024, Internet

Atomic force microscopy in 3D
EurekAlert!, 03 Jul. 2024, Internet

柔らかい分子、立体的に可視化
北國新聞, 26面, 03 Jul. 2024, Paper

Discovery of an unexpected structure and intermolecular interactions of a voltage-gated Na+ channel
Wakayama prefecture, わかやま県政ニュース, 21 Dec. 2023, Internet

Sodium channel investigation
EurekAlert!, 20 Dec. 2023, Internet

Unexpected Structure and Molecular Interactions of a Voltage-dependent Na+ Channel
株式会社官庁通信社, BUNKYO DIGITAL, 19 Dec. 2023, Internet

Ion channel block unraveled
EurekAlert!, 04 Aug. 2023, Internet

Experiments provide insights into the molecular mechanism for memory and learning
EurekAlert!, 30 Jun. 2023, Internet

Experiments reveal chilli-sensitive molecular structure fluctuation changes in TRPV1
EurekAlert!, 14 May 2023, Internet

Imaging slower moving molecules in biopolymers
Nature index, 28 Oct. 2022, Internet

Simulating 3D-AFM images for systems not in equilibrium
EurekAlert!, 30 Jun. 2022, Internet

金沢大、3次元原子間力顕微鏡像を予測する新たなシミュレーション手法を開発
日本経済新聞, 電子版, 14 Jun. 2022, Paper

細胞内のイオンの流れ解明
中日新聞, 14面, 19 May 2021, Paper

カリウムチャネルの謎解明
科学新聞, 30 Apr. 2021, Paper

イオン通り道の謎解明
北國新聞, 28面, 16 Apr. 2021, Paper

イオンの流れ方解明
福井新聞, 26面, 16 Apr. 2021, Paper

New study challenges 'established' mechanism about selectivity of cellular ion channels
EurekAlert!, 01 Mar. 2021, Internet

Mechanism of scorpion toxin inhibition of K+ channel elucidated using high-speed AFM
EurekAlert!, 03 Jul. 2019, Internet

体内のカリウムイオンやりとり
読売新聞, 31面, 18 Nov. 2016, Paper

External funds: Kakenhi

Universality and Diversity of Fast Ion Permeation in Ion Channels: Integrating Theory and Validation
Grant-in-Aid for Scientific Research (A)
Medium-sized Section 32:Physical chemistry, functional solid state chemistry, and related fields
Institute for Molecular Science
斉藤真司
From 01 Apr. 2026, To 31 Mar. 2031, Granted
イオンチャネル;イオン透過;揺らぎ;分子動力学シミュレーション;単一チャネル電流計測
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-26H02273/

Elucidation of the Protein Basis of Memory Formation by High-Speed AFM
Grant-in-Aid for Scientific Research (A)
Medium-sized Section 43:Biology at molecular to cellular levels, and related fields
Kanazawa University
柴田幹大
From 01 Apr. 2025, To 31 Mar. 2029, Granted
1分子イメージング・ナノ計測;記憶・学習;一分子計測・操作;記憶タンパク質;高速原子間力顕微鏡
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-25H00972/

The master of ion selectivity of ion channels
Grant-in-Aid for Scientific Research (B)
Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
Wakayama Medical University
入江克雅
From 01 Apr. 2024, To 31 Mar. 2027, Granted
イオン選択性;イオンチャネル;構造解析;電気生理;分子動力学計算
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-24K02168/

Theoretical development of simultaneous measurements of molecular structure and dynamics using atomic force microscopy and its application to real molecules
Grant-in-Aid for Scientific Research (B)
Basic Section 28040:Nanobioscience-related
Kanazawa University
炭竈享司
From 01 Apr. 2024, To 31 Mar. 2028, Granted
原子間力顕微鏡;分子動力学;アクチン;粗視化モデル
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-24K01308/

Elucidation of polymerization mechanism of ion channels and its physiological significance
Grant-in-Aid for Young Scientists (B)
Kanazawa University;University of Fukui
Takashi Sumikama
From 01 Apr. 2017, To 31 Mar. 2020, Project Closed
イオンチャネル;細胞膜;分子動力学法;シミュレーション;分子動力学;タンパク質;膜;相互作用;膜挿入;トキシン;チャネル;多量体形成
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-17K17768/

Development of a theory to describe ion permeation and selectivity through potassium channels
Grant-in-Aid for Young Scientists (B)
University of Fukui
Takashi Sumikama
From 01 Apr. 2014, To 31 Mar. 2016, Project Closed
イオンチャネル;イオン透過;イオン選択性;分子動力学法;シミュレーション;モデルチャネル;分子動力学
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-26870232/

Mechanism underlying the clustering-dispersion dynamics of the channel protein on the membrane
Grant-in-Aid for Scientific Research (A)
University of Fukui
Shigetoshi Oiki
From 01 Apr. 2014, To 31 Mar. 2017, Project Closed
lipid bilayer;single-channel current;membrane lipid;clustering;channel gating;チャネル;細胞膜;集合・離散;ゲーティング;蛋白質;走査プローブ顕微鏡;生理学;イオンチャネル;膜蛋白質;原子間力顕微鏡
https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-26253014/

Last Updated :2026/08/21

Education

Teaching subject(s)

From 01 Apr. 2026, To 31 Mar. 2027
Mathematical, Statistical and Computational Biology for Expe rimental Biologists
M344, Year-long, Institute for Liberal Arts and Sciences, 1

From 01 Apr. 2026, To 31 Mar. 2027
Advanced Course of Genome Life Science
M216, Spring, Institute for Liberal Arts and Sciences, 1

From 01 Apr. 2026, To 31 Mar. 2027
Mathematical, Statistical and Computational Biology for Experimental Biologists
1034, Year-long, Graduate School of Biostudies, 1

From 01 Apr. 2026, To 31 Mar. 2027
Advanced course of genome life sciences
1038, Spring, Graduate School of Biostudies, 1

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