Professor   浜地 格 - Itaru Hamachi -

Paper List 2010 -

233. Chemical labeling for visualizing native AMPA receptors in live neurons
S. Wakayama, S. Kiyonaka*, I. Arai, W. Kakegawa, S. Matsuda, K. Ibata, Y. L. Nemoto, A. Kusumi, M. Yuzaki, I. Hamachi*
Nat. Commun., 8, 14850 (2017)

232. Construction of Protein-Based Biosensors Using Ligand-Directed Chemistry for Detecting Analyte Binding
K. Yamaura, S. Kiyonaka, I. Hamachi
Methods Enzymol., 589, 253-280 (2017)

231. Design strategies of stimuli-responsive supramolecular hydrogels relied on structural analyses and cell-mimicking approaches
H. Shigemitsu, I. Hamachi
Acc. Chem. Res., 50, 740-750 (2017)

230. Fluorescence sensing of inorganic phosphate and pyrophosphate using small molecular sensors and their applications
J. Wongkongkatep, A. Ojida, I. Hamachi
Top. Curr. Chem., 375, 30 (2017)

229. A conditional proteomics approach to identify proteins involved in zinc homeostasis
T. Miki, M. Awa, Y. Nishikawa, S. Kiyonaka, M. Wakabayashi, Y. Ishihama, I. Hamachi*
Nat. Methods, 13, 931-937 (2016)

228. A set of organelle-localizable reactive molecules for mitochondrial chemical proteomics in living cells and brain tissues
Y. Yasueda, T. Tamura, A. Fujisawa, K. Kuwata, S. Tsukiji, S. Kiyonaka, I. Hamachi*
J. Am. Chem. Soc., 138, 7592-7602 (2016)

227. Allosteric activation of membrane-bound glutamate receptors using coordination chemistry within living cells
S. Kiyonaka*, R. Kubota, Y. Michibata, M. Sakakura, H. Takahashi, T. Numata, R. Inoue, M. Yuzaki, I. Hamachi*
Nat. Chem., 8, 958–967 (2016)

226. Discovery of allosteric modulators for GABAA receptors by ligand-directed chemistry
K. Yamaura, S. Kiyonaka*, T. Numata, R. Inoue, I. Hamachi*
Nat. Chem. Biol., 12, 822-830 (2016)

225. Preparation of supramolecular hydrogel–enzyme hybrids exhibiting biomolecule-responsive gel degradation
H. Shigemitsu, T. Fujisaku, S. Onogi, T. Yoshii, M. Ikeda, I. Hamachi*
Nat. Protoc., 11, 1744-1756 (2016)

224. In situ real-time imaging of self-sorted supramolecular nanofibres
S. Onogi, H. Shigemitsu, T. Yoshii, T. Tanida, M. Ikeda, R. Kubota, I. Hamachi*
Nat. Chem., 8, 743-752 (2016)

223. Nucleus-selective Chemical Proteomics Using Hoechst-tagged Reactive Molecules
Y. Yasueda, T. Tamura, I. Hamachi*
Chem. Lett., 45, 265-267 (2016)

222. Ligation of Glycophorin A Generates Reactive Oxygen Species Leading to Decreased Red Blood Cell Function
J. Khoory, J. Estanislau, A. Elkhal, A. Lazaar, M. I. Melhorn, A. Brodsky, B. Illigens, I. Hamachi, Y. Kurishita, A. RIvanov, S. Shevkoplyas, N. I. Shapiro, I. C. Ghiran
PloS one, 11, 1 (2016)

221. Validating Subcellular Thermal Changes Revealed by Fluorescent Thermosensors
S. Kiyonaka, R. Sakaguchi, I. Hamachi, T. Morii, T. Yoshizaki, Y. Mori
Nature Methods, 12, 801-802 (2015)

220. Biomembrane-embedded Catalysts for Membrane-associated Protein Labeling on Red Blood Cells
Y. Yasueda, T. Tamura, K. Kuwata, Y. Takaoka, I. Hamachi*
Chem. Lett., 44, 1673-1675 (2015)

219. Supramolecular Assemblies Responsive to Biomolecules toward Biological Applications
H. Shigemitsu, I. Hamachi*
Chem. Asian J., 10, 2026-2038 (2015)

218. Design of Coordination Interaction of Zn(II) Complex with Oligo-Aspartate Peptide to Afford a High-Affinity Tag-Probe Pair
H. Fuchida, S. Tabata, N. Shindo, I. Takashima, Q. Leng, Y. Hatsuyama, I. Hamachi, A. Ojida*
Bull. Chem. Soc. Jpn., 88, 784-791 (2015)

217. Analysis of Cell-surface Receptor Dynamics Through Covalent Labeling by Catalyst-tethered Antibody
T. Hayashi, Y. Yasueda, T. Tamura, Y. Takaoka, I. Hamachi*
J. Am. Chem. Soc., 137, 3360-3365 (2015)

216. Protein Recognition with Synthetic Small-molecular Binders toward Optical Protein Sensing in Vitro and in Live Cells
R. Kubota, I. Hamachi*
Chem. Soc. Rev., 44, 4454 - 4471 (2015)

215. Ligand-directed Dibromophenyl Benzoate Chemistry for Rapid and Selective Acylation of Intracellular Natural Proteins
Y. Takaoka, Y. Nishikawa, Y. Hashimoto, K. Sasaki, I. Hamachi*
Chem. Sci., 6, 3217 - 3224 (2015)

214. Chemically Reactive Supramolecular Hydrogel Coupled with a Signal Amplification System for Enhanced Analyte Sensitivity
T. Yoshii, S. Onogi, H. Shigemitsu, I. Hamachi*
J. Am. Chem. Soc., 137, 3360-3365 (2015)

213. Extended Affinity-guided DMAP Chemistry with Finely-tuned Acyl Donor for Intracellular FKBP12 Labeling
Z. Song, Y. Takaoka, Y. Kioi, K. Komatsu, T. Tamura, T. Miki, I. Hamachi*
Chem. Lett., 44, 333-335 (2015)

212. Rapid and Quantitative Fluorescence Detection of Pathogenic Spore-forming Bacteria Using a Xanthene-Zn(II) Complex Chemosensor
P. Tiposoth, S. Khamsakhon, N. Ketsub, T. Pongtharangkul, I. Takashima, A. Ojida, I. Hamachi, J. Wongkongkatep*
Sensors and Actuators B, 209, 606-612 (2015)

211. Ligand-Directed Tosyl Chemistry for Selective Native Protein Labeling In Vitro, In Cells, and In Vivo
S. Tsukiji, I. Hamachi*
Methods in Mol. Biol., 1266, 243-263 (2015)

210. Development of AND Logic Gate-type Fluorescent Probe for Ratiometric Imaging of Autolysosome in Cell Autophagy
I. Takashima, R. Kawagoe, I. Hamachi, A. Ojida*
Chem. -A Euro. J., 21, 2038-2044 (2015)

209. Labeling Proteins by Affinity-guided DMAP Chemistry
T. Tamura, I. Hamachi*
Methods in Mol. Biol., 1266, 229-242 (2015)

208. Intracellular Protein-responsive Supramolecules:Protein Sensing and In-cell Construction of Inhibitor Assay System
T. Yoshii, K. Mizusawa, Y. Takaoka, I. Hamachi*
J. Am. Chem. Soc., 136, 16635-16642 (2014)

207. Recent Progress in Design of Protein-based Fluorescent Biosensors and Their Cellular Applications
T. Tamura, I. Hamachi*
ACS Chemical Biology, 9, 2708-2717 (2014)

206. Live Cell Off-target Identification of Lapatinib Using Ligand-Directed Tosyl Chemistry
K. Yamaura, K. Kuwata, T. Tamura, Y. Kioi, Y. Takaoka, S. Kiyonaka, I. Hamachi*
Chem. Commun., 50, 14097-14100

205. LDAI-based Chemical Labeling of Intact Membrane Proteins and its Pulse-Chase Analysis under Live Cell Conditions
T. Miki, S. Fujishima, K. Komatsu, K. Kuwata, S. Kiyonaka, I. Hamachi*
Chemistry & Biology, 21, 1013-1022 (2014)

204. Two-photon Responsive Supramolecular Hydrogel for Controlling Materials Motion in Micrometer Space
T. Yoshii, M. Ikeda, I. Hamachi*
Angew. Chem. Int. Ed., 53, 7264–7267 (2014)

203. Installing Logic-gate Responses to a Variety of Biological Substances in Supramolecular Hydrogel–enzyme Hybrids
M. Ikeda, T. Tanida, T. Yoshii, K. Kurotani, S. Onogi, K. Urayama, I. Hamachi*
Nat. Chem., 6, 511-518 (2014)

202. Design of a Binuclear Ni(II)–iminodiacetic Acid (IDA) Complex for Selective Recognition and Covalent Labeling of His-tag Fused Proteins
I. Takahira, H. Fuchida, S. Tabata, N. Shindo, S. Uchinomiya, I. Hamachi, A. Ojida*
Bioorg. Med. Chem. Lett., 24, 2855–2858 (2014)

201. Hoechst Tagging: a Modular Strategy to Design Synthetic Fluorescent Probes for Live-cell Nucleus Imaging
A. Nakamura, K. Takigawa, Y. Kurishita, K. Kuwata, M. Ishida, Y. Shimoda, I. Hamachi*, S. Tsukiji*
Chem. Commun., 50, 6149-6152 (2014)

200. Ligand-directed Tosyl Chemistry for in Situ Native Protein Labeling and Engineering in Living Systems: from Basic Properties to Applications
S. Tsukiji, I. Hamachi*
Curr. Opin. Chem. Biol., 21, 136-143 (2014)

199. Design of Peptide-based Bolaamphiphile Exhibiting Heat-set Hydrogelation Via Retro-Diels-Alder Reaction
R. Ochi, T. Nishida, M. Ikeda, I. Hamachi*
J. Mater. Chem. B, 2, 1464-1469 (2014)

198. Design of Ratiometric Fluorescent Probes Based on Arene-Metal Ion Contact and Their Application to Cd(II) and Hydrogen Sulfide Imaging in Living Cell
I. Takashima, M. Kinoshita, R. Kawagoe, S. Nakagawa, M. Sugimoto, I. Hamachi, A. Ojida*
Chem. -A Euro. J., 20, 2184-2192 (2014)

197. Peptide Tag/Probe Pairs Based on Coordination Chemistry for Protein Labeling
S. Uchinomiya, A. Ojida, I. Hamachi*
Inorg. Chem., 53, 1816-1823 (2014)

196. Heme Binding Mechanism of Structurally Similar Iron-Regulated Surface Determinant Near Transporter Domains of Staphylococcus aureus Exhibiting Different Affinities for Heme
Y. Moriwaki, T. Terada, J. M. M. Caaveiro, Y. Takaoka, I. Hamachi, K. Tsumoto, K. Shimizu
Biochemistry, 52, 8866-8877 (2013)

195. Selective Binding of Antimicrobial Porphyrins to the Heme-receptor IsdH-NEAT3 of Staphylococcus Aureus
N. T. Vu, Y. Moriwaki, J. M. M. Caaveiro, T. Terada, H. Tsutsumi, I. Hamachi, K. Shimizu, K. Tsumoto
Protein Sci., 22, 942-953 (2013)

194. CR1-mediated ATP Release by Human Red Blood Cells Promotes CR1 Clustering and Modulates the Immune Transfer Process
M. I. Melhorn, A. S. Brodsky, J. Estanislau, J. A. Khoory, B. Illigens, I. Hamachi, Y. Kurishita, A. D. Fraser, A. Nicholson-Weller, E. Dolmatova, H. S. Duffy, I. C. Ghiran
J. Biol. Chem., 288, 31139-31153 (2013)

193. Genetically Encoded Fluorescent Thermosensors Visualize Subcellular Thermoregulation in Living Cells
S. Kiyonaka, T. Kajimoto, R. Sakaguchi, D. Shinmi, M. Omatsu-Kanbe, H. Matsuura, H. Imamura, T. Yoshizaki, I. Hamachi, T. Morii, Y. Mori*
Nat. Methods, 10, 1232-1238 (2013)

192. Selective Labeling and Imaging of Protein Using Metal Complex
Y. Kurishita, I. Hamachi
Coordination Chemistry in Protein Cages, 223-239 (2013)

191. Disassembly-driven Turn-on Sensing of Enzyme Activity by using Substrate-based Fluorescent Nanoprobe
Y. Takaoka, Y. Fukuyama, K. Matsuo, I. Hamachi*
Chem. Lett., 42, 1426-1428 (2013)

190. Synthetic Self-Localizing Ligands That Control The Spatial Location of Proteins in Living Cells
M. Ishida, H. Watanabe, K. Takigawa, Y. Kurishita, C. Oki, A. Nakamura, I. Hamachi*, S. Tsukiji*
J. Am. Chem. Soc., 135, 12684-12689 (2013)

189. Semisynthetic Lectin-Dimethylaminopyridine Conjugates for Labeling and Profiling Glycoproteins on Live Cell Surfaces
T. Hayashi, Y. Sun, T. Tamura, K. Kuwata, Z. Song, Y. Takaoka, I. Hamachi*
J. Am. Chem. Soc., 135, 12252-12258 (2013)

188. Specific Detection and Imaging of Enzyme Activity by Signal Amplifiable Self- Assembling 19F-MRI Probes
K. Matsuo, R. Kamada, K. Mizusawa, H. Imai, Y. Takayama, M. Narazaki, T. Matsuda, Y. Takaoka, I. Hamachi*
Chem. -A Euro. J., 19, 12875-12883 (2013)

187. Fluorophore Labeling of Native FKBP12 by Ligand-directed Tosyl Chemistry Allows Detection of Its Molecular Interactions in Vitro and in Living Cells
T. Tamura, Y. Kioi, T. Miki, S. Tsukiji, I. Hamachi*
J. Am. Chem. Soc., 135, 6782-6785 (2013)

186. In-Cell Covalent Labeling of Reactive His-Tag Fused Proteins
S. Uchinomiya, H. Nonaka, S. Wakayama, A. Ojida, I. Hamachi*
Chem. Commun., 49, 5022-5024 (2013)

185. One-step Construction of Caged Carbonic Anhydrase I Using a Ligand-directed Acyl Imidazole-based Protein Labeling Method
K. Matsuo, Y. Kioi, R. Yasui, Y. Takaoka, T. Miki, S. Fujishima, I. Hamachi*
Chem. Sci., 4, 2573 - 2580 (2013)

184. Quantitative Comparison of Protein Dynamics in Live Cells and in Vitro by In-cell 19F-NMR
Y. Takaoka , Y. Kioi , A. Morito , J. Otani , K. Arita , E. Ashihara , M. Ariyoshi , H. Tochio , M. Shirakawa, I. Hamachi*
Chem. Commun., 49, 2801-2803 (2013)

183. Protein Organic Chemistry and Application for Labeling and Engineering in Live-Cell Systems
Y. Takaoka, A. Ojida, I. Hamachi
Angew. Chem. Int. Ed., 52, 4088-4106 (2013)

182. Supramolecular Hydrogels Based on Bola-amphiphilic Glycolipids Showing Color Change in Response to Glycosidases
R. Ochi, K. Kurotani, M. Ikeda, S. Kiyonaka, I. Hamachi*
Chem. Commun., 49, 2115-2117 (2012)

181. Label-Free Fluorescent Detection of Loop-Mediated Isothermal Amplification of Nucleic Acid Using Pyrophosphate-selective Xanthene-based Zn(II)-Coordination Chemosensor
E. Kittiloespaisan, A. Ojida, I. Hamachi, Y. Seetang-Nun, W. Kiatpathomchai, J. Wongkongkatep*
Chem. Lett., 41, 1666-1668 (2012)

180. Organelle-Localizable Fluorescent Chemosensors for Site-Specific Multicolor Imaging of Nucleoside Polyphosphate Dynamics in Living Cells
Y. Kurishita, T. Kohira, A. Ojida, I. Hamachi*
J. Am. Chem. Soc., 134, 18779–18789 (2012)

179. Specific Cell Surface Protein Imaging by Extended Self-assembling Fluorescent Turn-on Nanoprobes
K. Mizusawa, Y. Takaoka, I. Hamachi*
J. Am. Chem. Soc., 134, 13386-13395 (2012)

178. Heat-Induced Morphological Transformation of Supramolecular Nanostructures by Retro-Diels-Alder Reaction
M. Ikeda, R. Ochi, Y. Kurita, D. J. Pochan, I. Hamachi*
Chem. -A Euro. J., 18, 13091-13096 (2012)

177. What do we want to see and how?
Itaru Hamachi
Curr. Opin. Chem. Biol., 16, 593-594 (2012)

176. Traceless Affinity Labeling of Endogenous Proteins for Functional Analysis in Living Cells
T. Hayashi, I. Hamachi
Accounts of Chemical Research, 45, 1460-1469 (2012)

175. Bacteria Interface Pickering Emulsions Stabilized by Self-assembled Bacteria–Chitosan Network
P. Wongkongkatep, K. Manopwisedjaroen, P. Tiposoth, S. Archakunakorn, T. Pongtharangkul, M. Suphantharika, K. Honda, I. Hamachi, J. Wongkongkatep*
Langmuir, 28, 5729-5736 (2012)

174. Ligand-directed Acyl Imidazole Chemistry for Labeling of Membrane-bound Proteins on Live Cells
S. Fujishima, R. Yasui, T. Miki, A. Ojida, I. Hamachi*
J. Am. Chem. Soc., 134, 3961-3964 (2012)

173. A Supramolecular Hydrogel Containing Boronic Acid-appended Receptor for Fluorocolorimetric Sensing of Polyols with Paper Platform
M. Ikeda, K. Fukuda, T. Tanida, T. Yoshii, I. Hamachi*
Chem. Commun., 48, 2716-2718 (2012)

172. Native FKBP12 Engineering by Ligand-Directed Tosyl Chemistry: Labeling Properties and Application to Photo-Cross-Linking of Protein Complexes in Vitro and in Living Cells
T. Tamura, S. Tsukiji, I. Hamachi*
J. Am. Chem. Soc., 134, 2216-2226 (2012)

171. Phosphopeptide-Dependent Labeling of 14-3-3ζ Proteins by Fusicoccin-Based Fluorescent Probes
M. Takahashi, A. Kawamura, N. Kato, T. Nishi, I. Hamachi, J. Ohkanda*
Angew. Chem. Int. Ed., 51, 509-512 (2012)

170. Design of Multinuclear Zn(II) Complex as New Molecular Probe for Fluorescence Imaging of His-tag Fused Proteins
S. Fujishima, H. Nonaka, S. Uchinomiya, Y. A. Kawase, A. Ojida, I. Hamachi*
Chem. Commun., 48, 594-596 (2012)

169. Meter-Long and Robust Supramolecular Strands Encapsulated in Hydrogel Jackets
D. Kiriya, M. Ikeda, H. Onoe, M. Takinoue, H. Komatsu, Y. Shimoyama, I. Hamachi, S. Takeuchi*
Angew. Chem. Int. Ed., 51, 1553-1557 (2012)

168. Molecular Basis of Recognition of Antibacterial Porphyrins by Heme- Transporter IsdH-NEAT3 of Staphylococcus aureus
Y. Moriwaki, J. M. M. Caaveiro, Y. Tanaka, H. Tsutsumi, I. Hamachi, K. Tsumoto*
Biochemistry, 50, 7311-7320 (2011)

167. Chemical Cell-Surface Receptor Engineering Using Affinity-Guided, Multivalent Organocatalysts
H. Wang, Y. Koshi, D. Minato, H. Nonaka, S. Kiyonaka, Y. Mori, S. Tsukiji, I. Hamachi*
J. Am. Chem. Soc., 133, 12220-12228 (2011)

166. Systematic Study of Protein Detection Mechanism of Self-assembling 19F NMR/MRI Nanoprobes toward Rational Design and Improved Sensitivity
Y. Takaoka, K. Kiminami, K. Mizusawa, K. Matsuo, M. Narazaki, T. Matsuda, I. Hamachi*
J. Am. Chem. Soc., 133, 11725-11731 (2011)

165. Construction of a (19)F-lectin biosensor for glycoprotein imaging by using affinity-guided DMAP chemistry
Y. Sun, Y. Takaoka, S. Tsukiji, M. Narazaki, T. Matsuda, I. Hamachi*
Bioorg. Med. Chem. Lett., 21, 4393-4396 (2011)

164. Rigid Luminescent Bis-Zinc(II)–Bis-Cyclen Complexes for the Detection of Phosphate Anions and Non-Covalent Protein Labeling in Aqueous Solution
M. Bhuyan, E. Katayev, S. Stadlbauer, H. Nonaka, A. Ojida, I. Hamachi, B. König*
Eur. J. Org. Chem., 15, 2807–2817 (2011)

163. Stiff, Multistimuli-Responsive Supramolecular Hydrogel as Unique Molds for 2D/3D Microarchitectures of Live Cells
H. Komatsu, S. Tsukiji, M. Ikeda, I. Hamachi*
Chem. Asian J., 6, 2368-2375 (2011)

162. Rational Molecular Design of Stimulus-responsive Supramolecular Hydrogel Based on Dipeptides
M. Ikeda, T. Tanida, T. Yoshii, I. Hamachi*
Adv. Mater., 23, 2819-2822 (2011)

161. Mechanical Reinforcement of Supramolecular Hydrogel Through Incorporation of Multiple Noncovalent Interactions
H. Komatsu, M. Ikeda, I. Hamachi*
Chem. Lett., 40, 198-200 (2011)

160. Montmorillonite-Supramolecular Hydrogel Hybrid for Fluorocolorimetric Sensing of Polyamines
M. Ikeda, T. Yoshii, T. Matsui, T. Tanida, H. Komatsu, I. Hamachi*
J. Am. Chem. Soc., 133, 1670-1673 (2011)

159. Mechanisms of Chemical Protein 19F-Labeling and NMR-Based Biosensor Construction In Vitro and In Cells Using Self-Assembling Ligand-Directed Tosylate Compounds
Y. Takaoka, Y. Sun, S. Tsukiji, I. Hamachi*
Chem. Sci., 2, 511-520 (2011)

158. Supramolecular hydrogel-based protein and chemosensor array
M. Ikeda, R. Ochi, I. Hamachi
Lab on a Chip, 10, 3325-3334 (2010)

157. Rational Design of FRET-Based Ratiometric Chemosensors for in Vitro and in Cell Fluorescence Analyses of Nucleoside Polyphosphates
Y. Kurishita, T. Kohira, A. Ojida, I. Hamachi*
J. Am. Chem. Soc., 132, 13290-13299 (2010)

156. Supramolecular Hydrogel Capsule Showing Prostate Specific Antigen-responsive Function for Sensing and Targeting Prostate Cancer Cell
M. Ikeda, R. Ochi, A. Wada, I. Hamachi*
Chem. Sci., 1, 491-498 (2010)

155. Selective Covalent Labeling of Tag-Fused GPCR Proteins on Live Cell Surface with a Synthetic Probe for Their Functional Analysis
H. Nonaka, S. Fujishima, S. Uchinomiya, A. Ojida, I. Hamachi*
J. Am. Chem. Soc., 132, 9301-9309 (2010)

154. Disassembly-Driven Turn-On Fluorescent Nanoprobes for Selective Protein Detection
K. Mizusawa, Y. Ishida, Y. Takaoka, M. Miyagawa, S. Tsukiji, I. Hamachi*
J. Am. Chem. Soc., 132, 7291-7293 (2010)

153. Fluidic Supramolecular Nano- and Microfibres as Molecular Rails for Regulated Movement of Nanosubstances
S. Tamaru, M. Ikeda, Y. Shimidzu, S. Matsumoto, S. Takeuchi, I. Hamachi*
Nat. Commun., 1, 20 (2010)

152. Thermoresponsive Fluorescent Sensor Based on Core/Shell Nanocomposite Composed of Gold Nanoparticles and Poly(N-isopropylacrylamide)
J. Wongkongkatep*, R. Ladadat, W. Lappermpunsap, P. Wongkongkatep, P. Phinyocheep, A. Ojida, I. Hamachi
Chem. Lett., 39, 184-185 (2010)

151. Development of Highly Sensitive Fluorescent Probes for Detection of Intracellular Copper(I) in Living Systems
M. Taki*, S. Iyoshi, A. Ojida, I. Hamachi, Y. Yamamoto
J. Am. Chem. Soc., 132, 5938-5939 (2010)

150. Binuclear NiII-DpaTyr Complex as a High Affinity Probe for an Aspartate Tag Tethered to Proteins
A. Ojida, S. Fujishima, K. Honda, H. Nonaka, S. Uchinomiya, I. Hamachi*
Chem. Asian J., 5, 877-886 (2010)


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