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Toru Shimizu

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Kyosuke Nakajima; Jotaro Igarashi; Kenichi Kitanishi; Kazuo Kobayashi; Nagao Kobayashi; Toru Shimizu
Leu65 in the heme distal side is critical for the stability of the Fe(II)-O2 complex of YddV, a globin-coupled oxygen sensor diguanylate cyclase.
Kentaro Mukai; Toru Shimizu; Jotaro Igarashi
Phosphorylation of a heme-regulated eukaryotic initiation factor 2α kinase enhances the interaction with heat-shock protein 90 and substantially upregulates kinase activity.
Kenichi Kitanishi; Kazuo Kobayashi; Jotaro Igarashi; Koichiro Ishimori; Takeshi Uchida; Toru Shimizu
Identification and functional and spectral characterization of a globin-coupled histidine kinase from Anaeromyxobacter sp. Fw109-5.

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2012: Kyosuke Nakajima; Jotaro Igarashi; Kenichi Kitanishi; Kazuo Kobayashi; Nagao Kobayashi; Toru Shimizu
Leu65 in the heme distal side is critical for the stability of the Fe(II)-O2 complex of YddV, a globin-coupled oxygen sensor diguanylate cyclase.
Journal of inorganic biochemistry 2012;108():163-70.
2011: Kentaro Mukai; Toru Shimizu; Jotaro Igarashi
Phosphorylation of a heme-regulated eukaryotic initiation factor 2α kinase enhances the interaction with heat-shock protein 90 and substantially upregulates kinase activity.
Protein and peptide letters 2011;18(12):1251-7.
2011: Kenichi Kitanishi; Kazuo Kobayashi; Jotaro Igarashi; Koichiro Ishimori; Takeshi Uchida; Toru Shimizu
Identification and functional and spectral characterization of a globin-coupled histidine kinase from Anaeromyxobacter sp. Fw109-5.
The Journal of biological chemistry 2011;286(41):35522-34.
2011: Jotaro Igarashi; Takehiko Sasaki; Noriko Kobayashi; Shinji Yoshioka; Miyuki Matsushita; Toru Shimizu
Autophosphorylation of heme-regulated eukaryotic initiation factor 2α kinase and the role of the modification in catalysis.
The FEBS journal 2011;278(6):918-28.
2010: Kenichi Kitanishi; Kazuo Kobayashi; Yuriko Kawamura; Izumi Ishigami; Takashi Ogura; Kyosuke Nakajima; Jotaro Igarashi; Atsunari Tanaka; Toru Shimizu
Important roles of Tyr43 at the putative heme distal side in the oxygen recognition and stability of the Fe(II)-O2 complex of YddV, a globin-coupled heme-based oxygen sensor diguanylate cyclase.
Biochemistry 2010;49(49):10381-93.
2009: Shinya Ito; Jotaro Igarashi; Toru Shimizu
The FG loop of a heme-based gas sensor enzyme, Ec DOS, functions in heme binding, autoxidation and catalysis.
Journal of inorganic biochemistry 2009;103(10):1380-5.
2009: Shinya Ito; Yasuyuki Araki; Atsunari Tanaka; Jotaro Igarashi; Takehiko Wada; Toru Shimizu
Role of Phe113 at the distal side of the heme domain of an oxygen-sensor (Ec DOS) in the characterization of the heme environment.
Journal of inorganic biochemistry 2009;103(7):989-96.
2008: Atsunari Tanaka; Toru Shimizu
Ligand binding to the Fe(III)-protoporphyrin IX complex of phosphodiesterase from Escherichia coli (Ec DOS) markedly enhances catalysis of cyclic di-GMP: roles of Met95, Arg97, and Phe113 of the putative heme distal side in catalytic regulation and ligand binding.
Biochemistry 2008;47(50):13438-46.
2008: Yukako Ishitsuka; Yasuyuki Araki; Atsunari Tanaka; Jotaro Igarashi; Osamu Ito; Toru Shimizu
Arg97 at the heme-distal side of the isolated heme-bound PAS domain of a heme-based oxygen sensor from Escherichia coli (Ec DOS) plays critical roles in autoxidation and binding to gases, particularly O2.
Biochemistry 2008;47(34):8874-84.
2008: Jotaro Igarashi; Motohiko Murase; Aya Iizuka; Fabio Pichierri; Marketa Martinkova; Toru Shimizu
Elucidation of the heme binding site of heme-regulated eukaryotic initiation factor 2alpha kinase and the role of the regulatory motif in heme sensing by spectroscopic and catalytic studies of mutant proteins.
The Journal of biological chemistry 2008;283(27):18782-91.
2008: Kenichi Kitanishi; Jotaro Igarashi; Koya Hayasaka; Naoki Hikage; Islam Saiful; Seigo Yamauchi; Takeshi Uchida; Koichiro Ishimori; Toru Shimizu
Heme-binding characteristics of the isolated PAS-A domain of mouse Per2, a transcriptional regulatory factor associated with circadian rhythms.
Biochemistry 2008;47(23):6157-68.
2007: Marketa Martinkova; Jotaro Igarashi; Toru Shimizu
Eukaryotic initiation factor 2alpha kinase is a nitric oxide-responsive mercury sensor enzyme: potent inhibition of catalysis by the mercury cation and reversal by nitric oxide.
FEBS letters 2007;581(21):4109-14.
2007: Kyoko Hirai; Marketa Martinkova; Jotaro Igarashi; Islam Saiful; Seigo Yamauchi; Samir El-Mashtoly; Teizo Kitagawa; Toru Shimizu
Identification of Cys385 in the isolated kinase insertion domain of heme-regulated eIF2 alpha kinase (HRI) as the heme axial ligand by site-directed mutagenesis and spectral characterization.
Journal of inorganic biochemistry 2007;101(8):1172-9.
2007: Atsunari Tanaka; Hiroto Takahashi; Toru Shimizu
Critical role of the heme axial ligand, Met95, in locking catalysis of the phosphodiesterase from Escherichia coli (Ec DOS) toward Cyclic diGMP.
The Journal of biological chemistry 2007;282(29):21301-7.
2006: Marketa Miksanova; Jotaro Igarashi; Masahiro Minami; Ikuko Sagami; Seigo Yamauchi; hirofumi kurokawa; Toru Shimizu
Characterization of heme-regulated eIF2alpha kinase: roles of the N-terminal domain in the oligomeric state, heme binding, catalysis, and inhibition.
Biochemistry 2006;45(32):9894-905.
2006: Yuji Mukaiyama; Takeshi Uchida; Emiko Sato; Ai Sasaki; Yuko Sato; Jotaro Igarashi; hirofumi kurokawa; Ikuko Sagami; Teizo Kitagawa; Toru Shimizu
Spectroscopic and DNA-binding characterization of the isolated heme-bound basic helix-loop-helix-PAS-A domain of neuronal PAS protein 2 (NPAS2), a transcription activator protein associated with circadian rhythms.
The FEBS journal 2006;273(11):2528-39.
2006: Nao Yokota; Yasuyuki Araki; hirofumi kurokawa; Osamu Ito; Jotaro Igarashi; Toru Shimizu
Critical roles of Leu99 and Leu115 at the heme distal side in auto-oxidation and the redox potential of a heme-regulated phosphodiesterase from Escherichia coli.
The FEBS journal 2006;273(6):1210-23.
2006: Sasakura Yukie; Tokiko Yoshimura-Suzuki; hirofumi kurokawa; Toru Shimizu
Structure-function relationships of EcDOS, a heme-regulated phosphodiesterase from Escherichia coli.
Accounts of chemical research 2006;39(1):37-43.
2005: Tokiko Yoshimura-Suzuki; Ikuko Sagami; Nao Yokota; hirofumi kurokawa; Toru Shimizu
DOS(Ec), a heme-regulated phosphodiesterase, plays an important role in the regulation of the cyclic AMP level in Escherichia coli.
Journal of bacteriology 2005;187(19):6678-82.
2005: Ryoji Koudo; hirofumi kurokawa; Emiko Sato; Jotaro Igarashi; Takeshi Uchida; Ikuko Sagami; Teizo Kitagawa; Toru Shimizu
Spectroscopic characterization of the isolated heme-bound PAS-B domain of neuronal PAS domain protein 2 associated with circadian rhythms.
The FEBS journal 2005;272(16):4153-62.
2005: Sasakura Yukie; Katsuhiro Kanda; Tokiko Yoshimura-Suzuki; Takuya Matsui; Shinichi Fukuzono; Toru Shimizu
Investigation of the relationship between protein-protein interaction and catalytic activity of a heme-regulated phosphodiesterase from Escherichia coli (Ec DOS) by protein microarray.
Biochemistry 2005;44(28):9598-605.
2005: Tokiko Yoshimura-Suzuki; Sasakura Yukie; Ikuko Sagami; Toru Shimizu
[A redox sensing heme-protein from Escherichia coli, Ec DOS: regulation mechanism of phosphodiesterase activity].
Seikagaku. The Journal of Japanese Biochemical Society 2005;77(2):129-33.
2004: Sasakura Yukie; Katsuhiro Kanda; Tokiko Yoshimura-Suzuki; Takuya Matsui; Shinichi Fukuzono; Moon Hi Han; Toru Shimizu
Protein microarray system for detecting protein-protein interactions using an anti-His-tag antibody and fluorescence scanning: effects of the heme redox state on protein-protein interactions of heme-regulated phosphodiesterase from Escherichia coli.
Analytical chemistry 2004;76(22):6521-7.
2004: Emiko Sato; Ikuko Sagami; Takeshi Uchida; Akira Sato; Teizo Kitagawa; Jotaro Igarashi; Toru Shimizu
SOUL in mouse eyes is a new hexameric heme-binding protein with characteristic optical absorption, resonance Raman spectral, and heme-binding properties.
Biochemistry 2004;43(44):14189-98.
2004: Miki Watanabe; hirofumi kurokawa; Tokiko Yoshimura-Suzuki; Ikuko Sagami; Toru Shimizu
Critical roles of Asp40 at the haem proximal side of haem-regulated phosphodiesterase from Escherichia coli in redox potential, auto-oxidation and catalytic control.
European journal of biochemistry / FEBS 2004;271(19):3937-42.
2004: Simona Bengea; Yasuyuki Araki; Osamu Ito; Jotaro Igarashi; Ikuko Sagami; Toru Shimizu
Analysis of the kinetics of CO binding to neuronal nitric oxide synthase by flash photolysis: dual effects of substrates, inhibitors, and tetrahydrobiopterin.
Journal of inorganic biochemistry 2004;98(7):1210-6.
2004: hirofumi kurokawa; Dong-Sun Lee; Miki Watanabe; Ikuko Sagami; Bunzo Mikami; C.S. Raman; Toru Shimizu
A redox-controlled molecular switch revealed by the crystal structure of a bacterial heme PAS sensor.
The Journal of biological chemistry 2004;279(19):20186-93.
2004: Jotaro Igarashi; Akira Sato; Teizo Kitagawa; Tetsuhiko Yoshimura; Seigo Yamauchi; Ikuko Sagami; Toru Shimizu
Activation of heme-regulated eukaryotic initiation factor 2alpha kinase by nitric oxide is induced by the formation of a five-coordinate NO-heme complex: optical absorption, electron spin resonance, and resonance raman spectral studies.
The Journal of biological chemistry 2004;279(16):15752-62.
2004: Yuko Sato; Ikuko Sagami; Toru Shimizu
Identification of caveolin-1-interacting sites in neuronal nitric-oxide synthase. Molecular mechanism for inhibition of NO formation.
The Journal of biological chemistry 2004;279(10):8827-36.
2004: Sue Taguchi; Toshitaka Matsui; Jotaro Igarashi; Sasakura Yukie; Yasuyuki Araki; Osamu Ito; Shunpei Sugiyama; Ikuko Sagami; Toru Shimizu
Binding of oxygen and carbon monoxide to a heme-regulated phosphodiesterase from Escherichia coli. Kinetics and infrared spectra of the full-length wild-type enzyme, isolated PAS domain, and Met-95 mutants.
The Journal of biological chemistry 2004;279(5):3340-7.
2003: Tokiko Yoshimura; Ikuko Sagami; Sasakura Yukie; Toru Shimizu
Relationships between heme incorporation, tetramer formation, and catalysis of a heme-regulated phosphodiesterase from Escherichia coli: a study of deletion and site-directed mutants.
The Journal of biological chemistry 2003;278(52):53105-11.
2003: Satoshi Hirata; Toshitaka Matsui; Sasakura Yukie; Shunpei Sugiyama; Tokiko Yoshimura; Ikuko Sagami; Toru Shimizu
Characterization of Met95 mutants of a heme-regulated phosphodiesterase from Escherichia coli. Optical absorption, magnetic circular dichroism, circular dichroism, and redox potentials.
European journal of biochemistry / FEBS 2003;270(23):4771-9.
2003: Jotaro Igarashi; Akira Sato; Teizo Kitagawa; Ikuko Sagami; Toru Shimizu
CO binding study of mouse heme-regulated eIF-2alpha kinase: kinetics and resonance Raman spectra.
Biochimica et biophysica acta 2003;1650(1-2):99-104.
2003: Ikuko Sagami; Yuko Sato; Toru Shimizu
[Structure-function relationships of NO synthase: electron transfer reaction].
Seikagaku. The Journal of Japanese Biochemical Society 2003;75(5):351-8.
2003: Jyoti Yadav; Ikuko Sagami; Toru Shimizu
Cyanide binding study of neuronal nitric oxide synthase: effects of inhibitors and mutations at the substrate binding site.
Journal of inorganic biochemistry 2003;95(1):25-30.
2003: Simona Bengea; Ikuko Sagami; Toru Shimizu
CO binding to the isolated oxygenase domain of neuronal nitric oxide synthase: effects of inhibitors and mutations at the substrate-binding site.
Journal of inorganic biochemistry 2003;94(4):343-7.
2002: Miki Watanabe; Toshitaka Matsui; Sasakura Yukie; Ikuko Sagami; Toru Shimizu
Unusual cyanide bindings to a heme-regulated phosphodiesterase from Escherichia coli: effect of Met95 mutations.
Biochemical and biophysical research communications 2002;299(2):169-72.
2002: Shigeyoshu Fuziwara; Ikuko Sagami; Elena A Rozhkova; Daniel Craig; Michael A Noble; Andrew W Munro; Stephen K Chapman; Toru Shimizu
Catalytically functional flavocytochrome chimeras of P450 BM3 and nitric oxide synthase.
Journal of inorganic biochemistry 2002;91(4):515-26.
2002: Akira Sato; Sasakura Yukie; Shunpei Sugiyama; Ikuko Sagami; Toru Shimizu; Yasuhisa Mizutani; Teizo Kitagawa
Stationary and time-resolved resonance Raman spectra of His77 and Met95 mutants of the isolated heme domain of a direct oxygen sensor from Escherichia coli.
The Journal of biological chemistry 2002;277(36):32650-8.
2002: Sasakura Yukie; Satoshi Hirata; Shunpei Sugiyama; Shingo Suzuki; Sue Taguchi; Miki Watanabe; Toshitaka Matsui; Ikuko Sagami; Toru Shimizu
Characterization of a direct oxygen sensor heme protein from Escherichia coli. Effects of the heme redox states and mutations at the heme-binding site on catalysis and structure.
The Journal of biological chemistry 2002;277(26):23821-7.
2002: Elena A Rozhkova; Norikazu Fujimoto; Ikuko Sagami; Simon Daff; Toru Shimizu
Interactions between the isolated oxygenase and reductase domains of neuronal nitric-oxide synthase: assessing the role of calmodulin.
The Journal of biological chemistry 2002;277(19):16888-94.
2001: Yuko Sato; Ikuko Sagami; Toru Shimizu
Critical role of the neuronal nitric-oxide synthase heme proximal side residue, Arg418, in catalysis and electron transfer.
Journal of inorganic biochemistry 2001;87(4):261-6.
2001: Ikuko Sagami; Simon Daff; Toru Shimizu
Intra-subunit and inter-subunit electron transfer in neuronal nitric-oxide synthase: effect of calmodulin on heterodimer catalysis.
The Journal of biological chemistry 2001;276(32):30036-42.
2001: Simon Daff; Michael A Noble; Daniel H Craig; Stuart L Rivers; Stephen K Chapman; Andrew W Munro; S Fujiwara; Elena A Rozhkova; Ikuko Sagami; Toru Shimizu
Control of electron transfer in neuronal NO synthase.
Biochemical Society transactions 2001;29(Pt 2):147-52.
1999: Michael A Noble; Andrew W Munro; Stuart L Rivers; L Robledo; Simon Daff; Lesley J Yellowlees; Toru Shimizu; Ikuko Sagami; J G Guillemette; Stephen K Chapman
Potentiometric analysis of the flavin cofactors of neuronal nitric oxide synthase.
Biochemistry 1999;38(50):16413-8.