Mizukami Laboratory

Quantification of Lysosomal Labile Zn²⁺ and Monitoring of Zn²⁺ Efflux Using a Small-Molecule-Protein Hybrid Fluorescent Probe
Y. Du, T. Kowada, E. Sung, R. Liu, A. Soloviev, T. Matsui, and S. Mizukami
J. Inorg. Biochem., (2025) 264, 112811.

クローズアップ実験法「光でタンパク質の局在を操作する：フォトクロミックCID法」
小和田俊行、馬場好花、水上進
実験医学（羊土社）, 2025年2月号, pp.449-455

Quantitative control of subcellular protein localization with a photochromic dimerizer
T. Mashita,# T. Kowada,# H. Yamamoto, S. Hamaguchi, T. Sato, T. Matsui, and S. Mizukami (#equally contributed)
Nat. Chem. Biol., (2024) 20, 1461–1470.
東北大学プレスリリース「生きた細胞内のタンパク質シグナルを光と特殊な分子で自在に操作する技術 ～マイトファジーの分子機構の理解に貢献～」

ケミカルバイオロジーの冒険（1）生体を観察するための化学　有機小分子型の蛍光プローブ
上野匡、花岡健二郎、平山祐、水上進
現代化学（東京化学同人）, 2024年4月号, 45-51.

Long-term imaging of intranuclear Mg²⁺ dynamics during mitosis using a localized fluorescent probe
Y. Matsui, T. Kowada, Y. Ding, P. R. Sahoo, K. Kikuchi, and S. Mizukami
Chem. Commun., (2023) 24, 7048–7051

Arylazopyrazole-Based Photoswitchable Inhibitors Selective for Escherichia coli Dihydrofolate Reductase
H. S. Sarkar, T. Mashita, T. Kowada, S. Hamaguchi, T. Sato, K. Kasahara, N. Matubayasi, T. Matsui, and S. Mizukami
ACS Chem. Biol., (2023) 18, 340–346.

Zinc homeostasis governed by Golgi-resident ZnT family members regulates ERp44-mediated proteostasis at the ER-Golgi interface
Y. Amagai, M. Yamada, T. Kowada, T. Watanabe, Y. Du, R. Liu, S. Naramoto, S. Watanabe, J. Kyozuka, T. Anelli, T. Tempio, R. Sitia, S. Mizukami, and K. Inaba
Nat. Commun., (2023) 14, 2683.

Subcellular Compartment-targeting Fluorescent Zn²⁺ Probes
T. Kowada, S. Mizukami
MONOGRAPHS IN SUPRAMOLECULAR CHEMISTRY, Fluorescent Chemosensors(L. Wu, A. C. Sedgwick, X. P. He,and T. D. James) Chapter 12, 256–285.

Clip to Click: Controlling Inverse Electron-Demand Diels–Alder Reactions with Macrocyclic Tetrazines
I. Novianti, T. Kowada, and S. Mizukami
Org. Lett., (2022) 24, 3223–3226.

Organelle-Level Labile Zn²⁺ Mapping Based on Targetable Fluorescent Sensors
R. Liu, T. Kowada, Y. Du, Y. Amagai, T. Matsui, K. Inaba, and S. Mizukami
ACS Sens., (2022) 7, 748–757.

Flexible Target Recognition of the Intrinsically Disordered DNA-Binding Domain of CytR Monitored by Single-Molecule Fluorescence Spectroscopy
Shrutarshi Mitra, Hiroyuki Oikawa, Divya Rajendran, Toshiyuki Kowada, Shin Mizukami, Athi N. Naganathan, and Satoshi Takahashi
J. Phys. Chem. B, (2022) 126, 6136–6147.

Autocitrullination and Changes in the Activity of Peptidylarginine Deiminase 3 Induced by High Ca²⁺ Concentrations
M. Sawata, H. Shima, K. Murayama, T. Matsui, K. Igarashi, K. Funabashi, K. Ite, K. Kizawa, H. Takahara, and M. Unno
ACS Omega, (2022) 7, 28378–28387.

細胞機能を探索するための光応答性プローブの開発
水上 進
YAKUGAKU ZASSHI, (2022) 142, 503–511.

ヘム分解酵素の多様な分子機構
松井敏高、齋藤正男
ヘムタンパク質の科学（(株) エヌ・ティー・エス）, 第1編4章2節, 159-167 (2022).

Quantitative and Repetitive Control of Subcellular Protein–Protein Interaction Using a Photochromic Dimerizer
T. Mashita, T. Kowada, H. Yamamoto, S. Hamaguchi, T. Matsui, S. Mizukami
ChemRxiv, (2022)

Optical manipulation of subcellular protein translocation using a photoactivatable covalent labeling system
T. Kowada, K. Arai, A. Yoshimura, T. Matsui, K. Kikuchi, S. Mizukami
Angew. Chem. Int. Ed., (2021) 60, 11378-11383.
Introduced in Chem-Station Spotlight Research.

Protocol for synthesis and use of a turn-on fluorescent probe for quantifying labile Zn²⁺ in the Golgi apparatus in live cell
T. Kowada, T. Watanabe, R. Liu, S. Mizukami
STAR Protoc., (2021) 2, 100395.

Long-Term Mg²⁺ Imaging in Live Cells with a Targetable Fluorescent Probe
P. R. Sahoo, T. Kowada, S. Mizukami
Methods in Molecular Biology (Humana, New York, NY), vol. 2274 Live Cell Imaging pp.237-243.

Fluorescent Probes for the Quantification of Labile Metal Ions in Living Cells
T. Kowada and S. Mizukami
J. Synth. Org. Chem. Jpn., (2021) 79, 1020-1032.

Functional small-molecule probes for fluorescence imaging of osteoclastsin vivo
T. Kowada
Bioimages, (2021) 29, 1–10.

Quantitative imaging of labile Zn²⁺ in the Golgi apparatus using a localizable small-molecule fluorescent probe
T. Kowada, T. Watanabe, Y. Amagai, R. Liu, M. Yamada, H. Takahashi, T. Matsui, K. Inaba , S. Mizukami
Cell Chem. Biol., (2020) 27 , 1521-1531.

Single-cell dynamics of pannexin-1-facilitated programmed ATP loss during apoptosis
H. Imamura, S. Sakamoto, T. Yoshida, Y. Matsui, S. Penuela, DW Laird, S. Mizukami, K. Kikuchi, A. Kakizuka
eLife, (2020) 9 , e61960.

Unique Electronic Structures of the Highly Ruffled Hemes in Heme-Degrading Enzymes of Staphylococcus aureus, IsdG and IsdI, by Resonance Raman and Electron Paramagnetic Resonance Spectroscopies
S. Takahashi, S. Nambu, T. Matsui, H. Fujii, H. Ishikawa, Y. Mizutani, K. Tsumoto, M. Ikeda-Saito
Biochemistry, (2020) 59, 3918-3928.

Structure determination of the human TRPV1 ankyrin-repeat domain under nonreducing conditions
M. Tanaka, K. Hayasaka, N. Ogawa, T. Kurokawa, K. Kitanishi, K. Ite, T. Matsui, Y. Mori, M. Unno
Acta Cryst., (2020) 76, 130-137.

光による生体分子機能の制御
水上進
［CSJカレントレビュー36］生体分子反応を制御する　化学的手法による機構と反応場の解明（化学同人出版）, 第Ⅱ部2章, p.51-56

Light-wavelength-based Quantitative Control of Dihydrofolate Reductase Activity Using Photochromic Isostere of Inhibitor
T. Mashita, T. Kowada, H. Takahashi, T. Matsui, S. Mizukami
ChemBioChem, (2019) 20, 1382-1386.

Improvement in Photostability of Fluorescein by Lanthanide Ions based on Energy Transfer-Based Triplet State Quenching
T. Imoto, M. Muramatsu, H. Miyasaka, S. Mizukami, K. Kikuchi
Chem. Lett., (2019) 48, 1181-1184.

Biophysical characterization of heme binding to the intrinsically disordered region of Bach1
K. Segawa, M. Watanabe-Matsui, K. Tsuda , T. Matsui, M. Shirouzu , K. Igarashi , K. Murayama
Eur. Biophys. J., (2019) 48, 361-369.

Functional Heme Binding to the Intrinsically Disordered C-Terminal Region of Bach1, a Transcriptional Repressor
K. Segawa, M. Watanabe-Matsui, T. Matsui, K. Igarashi, K. Murayama
Tohoku J. Exp. Med., (2019) 247, 153-159.

Perfluorocarbon-based ¹⁹F MRI Nanoprobes for In Vivo Multicolor Imaging
K. Akazawa, F. Sugihara, T. Nakamura, H. Matsushita, H. Mukai, R. Akimoto, M. Minoshima, S. Mizukami, K. Kikuchi
Angew. Chem., Int. Ed., (2018) 57, 16742-16747.

Hydrogen sulfide bypasses the rate-limiting oxygen activation of heme oxygenase
T. Matsui, R. Sugiyama, K. Sakanashi, Y. Tamura, M. Iida, Y. Nambu, T. Higuchi, M. Suematsu, M. Ikeda-Saito
J. Biol. Chem., (2018) 293, 16931-16939.

MRIなどへの機能性含フッ素プローブ応用
水上進
有機フッ素化合物の最新動向（シーエムシー出版）, 第2章3節, pp.151–160 (2018).

Sensing Caspase-1 Activity Using Activatable ¹⁹F MRI Nanoprobes with Improved Turn-on Kinetics
K. Akazawa, F. Sugihara, M. Minoshima, S. Mizukami, K. Kikuchi
Chem. Commun., (2018) 54, 11785-11788

Highly Sensitive Detection of Caspase-3/7 Activity in Living Mice Using Enzyme-Responsive ¹⁹F MRI Nanoprobes
K. Akazawa, F. Sugihara, T. Nakamura, S. Mizukami, K. Kikuchi
Bioconjugate Chem., (2018) 29, 1720–1728.

Ratiometric Imaging of Intracellular Mg²⁺ Dynamics Using a Red Fluorescent Turn-off Probe and a Green Fluorescent Turn-on Probe
Y. Matsui, S. Mizukami, K. Kikuchi
Chem. Lett., (2018) 47, 23–26.

蛋白質ラベル化技術atiometric Imaging of 実験医学増刊「イメージングの選び方・使い方100+」p.147-149（羊土社, 1018年）
小和田俊行, 水上進

Intracellular protein-labeling probes for multicolor single-molecule imaging of immune receptor-adaptor molecular dynamics
R. Sato, J. Kozuka, M. Ueda, R. Mishima, Y. Kumagai, A. Yoshimura, M. Minoshima, S. Mizukami, K. Kikuchi
J. Am. Chem. Soc., (2017) 139, 17397–17404.

Visualization of Long-term Mg²⁺ Dynamics in Apoptotic Cells with a Novel Targetable Fluorescent Probe
Y. Matsui, Y. Funato, H. Imamura, H. Miki, S. Mizukami, K. Kikuchi
Chem. Sci., (2017) 8, 8255-8264.

Highly selective tridentate fluorescent probes for visualizing intracellular Mg²⁺ dynamics without interference from Ca²⁺ fluctuation
Y. Matsui, K. K. Sadhu, S. Mizukami, K. Kikuchi
Chem. Commun., (2017) 53, 10644-10647

Enzyme-Triggered Compound Release using Functionalized Antimicrobial Peptide Derivatives
S. Mizukami, M. Kashibe, K. Matsmoto, Y. Hori, K. Kikuchi
Chem. Sci., (2017) 8, 3047-3053

Targetable Fluorescent Sensors for Advanced Cell Function Analysis
S. Mizukami
J. Photochem. Photobiol. C, (2017) 30, 24-35

Reaction intermediates in the heme degradation reaction by HutZ from Vibrio cholera
T. Uchida, S. Sekine, N. Dojun, A. Lewis-Ballester, I. Ishigami, T. Matsui, S. Yeh, K. Ishimori
Dalton Trans., (2017) 46, 8104-8109

Real-time Intravital Imaging of pH Variation Associated with Osteoclast Activity
H. Maeda, T. Kowada, J. Kikuta, M. Furuya, M. Shirazaki, S. Mizukami, M. Ishii, K. Kikuchi
Nat. Chem. Biol., (2016) 12, 579-585

Unique coupling of mono- and dioxygenase chemistries in a single active site promotes heme degradation
T. Matsui, S. Nambu, C. W. Goulding, S. Takahashi, H. Fujii, M. Ikeda-Saito
Proc. Natl. Acad. Sci., (2016) 113, 3779-84 [プレスリリース]

Artificial Hydrogenases based on Cobaloximes and Heme Oxygenase
M. Bacchi, E. Veinberg, M. J. Field, J. Niklas, T. Matsui, D. M Tiede, O. G. Poluektov, M. Ikeda-Saito, M. Fontecave V. Artero
ChemPlusChem, (2016) 81, 1083-1089

Charge-state-distribution analysis of Bach2 intrinsically disordered heme binding
T. Suenaga, M. Watanabe-Matsui, H. Shima, T. Matsui, M. Ikeda-Saito, K. Igarashi, K. Murayama
J. Biochem. (2016) 160 , 291-298.