Search results for: Takumi Noguchi

Items from 1 to 20 out of 66 results

article

Evaluation of photosynthetic activities in thylakoid membranes by means of Fourier transform infrared spectroscopy

Ryo Nagao, Sho Kitazaki, Takumi Noguchi

Biochimica et Biophysica Acta (BBA) - Bioenergetics > 2018 > 1859 > 2 > 129-136

Light-induced Fourier transformed infrared (FTIR) difference spectroscopy is a powerful method to study the structures and reactions of redox cofactors involved in the photosynthetic electron transport chain. So far, most of the FTIR studies of the reactions of oxygenic photosynthesis have been performed using isolated photosystem I (PSI) and photosystem II (PSII) preparations, which, however, could...

article

Exposure to nano-size titanium dioxide causes oxidative damages in human mesothelial cells: The crystal form rather than size of particle contributes to cytotoxicity

Kenji Hattori, Kazuhiko Nakadate, Akane Morii, Takumi Noguchi, more

Biochemical and Biophysical Research Communications > 2017 > 492 > 2 > 218-223

Exposure to nanoparticles such as carbon nanotubes has been shown to cause pleural mesothelioma similar to that caused by asbestos, and has become an environmental health issue. Not only is the percutaneous absorption of nano-size titanium dioxide particles frequently considered problematic, but the possibility of absorption into the body through the pulmonary route is also a concern. Nevertheless,...

chapter

Molecular Analysis by Vibrational Spectroscopy

Takumi Noguchi, Catherine Berthomieu

Advances in Photosynthesis and Respiration > Photosystem II > Structural Basis for Photosystem II > 367-387

Summary Vibrational spectroscopy, which includes infrared and Raman spectroscopies, provides structural information of molecules by detecting molecular vibrations based on chemical bonds and interactions. These methods have been applied to the study of various cofactors in Photosystem II. In particular, light-induced Fourier transform infrared (FTIR) difference spectroscopy has proven to be a powerful...

article

Time‐Resolved Crystallography of the Reaction Intermediate of Nitrile Hydratase: Revealing a Role for the Cysteinesulfenic Acid Ligand as a Catalytic Nucleophile

Yasuaki Yamanaka, Yuki Kato, Koichi Hashimoto, Keisuke Iida, more

Angewandte Chemie > 127 > 37 > 10913 - 10917

The reaction mechanism of nitrile hydratase (NHase) was investigated using time‐resolved crystallography of the mutant NHase, in which βArg56, strictly conserved and hydrogen bonded to the two post‐translationally oxidized cysteine ligands, was replaced by lysine, and pivalonitrile was the substrate. The crystal structures of the reaction intermediates were determined at high resolution (1.2–1.3 Å)...

article

Time‐Resolved Crystallography of the Reaction Intermediate of Nitrile Hydratase: Revealing a Role for the Cysteinesulfenic Acid Ligand as a Catalytic Nucleophile

Yasuaki Yamanaka, Yuki Kato, Koichi Hashimoto, Keisuke Iida, more

Angewandte Chemie International Edition > 54 > 37 > 10763 - 10767

article

Fourier transform infrared difference and time-resolved infrared detection of the electron and proton transfer dynamics in photosynthetic water oxidation

Takumi Noguchi

BBA - Bioenergetics > 2015 > 1847 > 1 > 35-45

Photosynthetic water oxidation, which provides the electrons necessary for CO₂ reduction and releases O₂ and protons, is performed at the Mn₄CaO₅ cluster in photosystem II (PSII). In this review, studies that assessed the mechanism of water oxidation using infrared spectroscopy are summarized focusing on electron and proton transfer dynamics. Structural changes in proteins and water molecules between...

article

Modified molecular interactions of the pheophytin and plastoquinone electron acceptors in photosystem II of chlorophyll d-containing Acaryochloris marina as revealed by FTIR spectroscopy

Yuko Sano, Kaichiro Endo, Tatsuya Tomo, Takumi Noguchi

Photosynthesis Research > 2015 > 125 > 1-2 > 105-114

Acaryochloris marina is a unique cyanobacterium that contains chlorophyll (Chl) d as a major pigment. Because Chl d has smaller excitation energy than Chl a used in ordinary photosynthetic organisms, the energetics of the photosystems of A. marina have been the subject of interest. It was previously shown that the redox potentials (E _m’s) of the redox-active pheophytin a (Pheo) and the primary plastoquinone...

article

Identification of the basic amino acid residues on the PsbP protein involved in the electrostatic interaction with photosystem II

Taishi Nishimura, Chihiro Uno, Kunio Ido, Ryo Nagao, more

Biochimica et Biophysica Acta (BBA) - Bioenergetics > 2014 > 1837 > 9 > 1447-1453

The PsbP protein is an extrinsic subunit of photosystem II (PSII) that is essential for photoautotrophic growth in higher plants. Several crystal structures of PsbP have been reported, but the binding topology of PsbP in PSII has not yet been clarified. In this study, we report that the basic pocket of PsbP, which consists of conserved Arg48, Lys143, and Lys160, is important for the electrostatic...

article

Development of a novel cryogenic microscope with numerical aperture of 0.9 and its application to photosynthesis research

Yutaka Shibata, Wataru Katoh, Tomofumi Chiba, Keisuke Namie, more

BBA - Bioenergetics > 2014 > 1837 > 6 > 880-887

A novel cryogenic optical-microscope system was developed in which the objective lens is set inside of the cryostat adiabatic vacuum space. Being isolated from the sample when it was cooled, the objective lens was maintained at room temperature during the cryogenic measurement. Therefore, the authors were able to use a color-aberration corrected objective lens with a numerical aperture of 0.9. The...

article

Molecular interactions of the quinone electron acceptors Q_A, Q_B, and Q_C in photosystem II as studied by the fragment molecular orbital method

Koji Hasegawa, Takumi Noguchi

Photosynthesis Research > 2014 > 120 > 1-2 > 113-123

Molecular interactions of the three plastoquinone electron acceptors, Q_A, Q_B, and Q_C, in photosystem II (PSII) were studied by fragment molecular orbital (FMO) calculations. Calculations at the FMO-MP2/6-31G level using PSII models deduced from the X-ray structure of the PSII complexes from Thermosynechococcus elongatus provided the binding energies of Q_A, Q_B, and Q_C as −56.1, −37.9, and −30.1 kcal/mol,...

article

The PsbQ protein stabilizes the functional binding of the PsbP protein to photosystem II in higher plants

Shusuke Kakiuchi, Chihiro Uno, Kunio Ido, Taishi Nishimura, more

BBA - Bioenergetics > 2012 > 1817 > 8 > 1346-1351

PsbP and PsbQ proteins are extrinsic subunits of photosystem II (PSII) and optimize the oxygen evolution reaction by regulating the binding properties of the essential cofactors Ca ²⁺ and Cl ⁻ . PsbP induces conformational changes around the catalytic Mn cluster required for Ca ²⁺ and Cl ⁻ retention, and the N-terminal region of PsbP is essential for this reaction....

article

Photosystem II–Gold Nanoparticle Conjugate as a Nanodevice for the Development of Artificial Light-Driven Water-Splitting Systems

Tomoyasu Noji, Hiroyuki Suzuki, Toshiaki Gotoh, Masako Iwai, more

The Journal of Physical Chemistry Letters > 2011 > 2 > 19 > 2448 - 2452

article

Herbicide effect on the photodamage process of photosystem II: Fourier transform infrared study

Issei Idedan, Tatsuya Tomo, Takumi Noguchi

BBA - Bioenergetics > 2011 > 1807 > 9 > 1214-1220

The photodamage process of photosystem II by strong illumination was investigated by examining the herbicide effects on the photoinactivation of redox cofactors. O ₂ -evolving photosystem II membranes from spinach in the absence of herbicide and in the presence of 3-(3,4-dichlorophenyl)-1,1-dimethylurea (DCMU) and bromoxynil were subjected to strong white-light illumination at 298K, and the...

article

How Does the Q _B Site Influence Propagate to the Q _A Site in Photosystem II?

Hiroshi Ishikita, Koji Hasegawa, Takumi Noguchi

Biochemistry > 2011 > 50 > 24 > 5436 - 5442

article

Interaction and Inhibitory Effect of Ammonium Cation in the Oxygen Evolving Center of Photosytem II

Masaya Tsuno, Hiroyuki Suzuki, Toru Kondo, Hiroyuki Mino, more

Biochemistry > 2011 > 50 > 13 > 2506 - 2514

article

Structural Coupling of an Arginine Side Chain with the Oxygen-Evolving Mn ₄ Ca Cluster in Photosystem II As Revealed by Isotope-Edited Fourier Transform Infrared Spectroscopy

Yuichiro Shimada, Hiroyuki Suzuki, Tohru Tsuchiya, Mamoru Mimuro, more

Journal of the American Chemical Society > 2011 > 133 > 11 > 3808 - 3811

article

The Cyanobacteriochrome, TePixJ, Isomerizes Its Own Chromophore by Converting Phycocyanobilin to Phycoviolobilin

Takami Ishizuka, Ayumi Kamiya, Hiroyuki Suzuki, Rei Narikawa, more

Biochemistry > 2011 > 50 > 6 > 953 - 961

article

Energetics in Photosystem II from Thermosynechococcus elongatus with a D1 protein encoded by either the psbA1 or psbA3 gene

Miwa Sugiura, Yuki Kato, Ryouta Takahashi, Hiroyuki Suzuki, more

BBA - Bioenergetics > 2010 > 1797 > 8 > 1491-1499

The main cofactors involved in the function of Photosystem II (PSII) are borne by the D1 and D2 proteins. In some cyanobacteria, the D1 protein is encoded by different psbA genes. In Thermosynechococcus elongatus the amino acid sequence deduced from the psbA ₃ gene compared to that deduced from the psbA ₁ gene points a difference of 21 residues. In this work, PSII isolated from a wild...

article

Structures and Binding Sites of Phenolic Herbicides in the Q _B Pocket of Photosystem II

Ryouta Takahashi, Koji Hasegawa, Akira Takano, Takumi Noguchi

Biochemistry > 2010 > 49 > 26 > 5445 - 5454

article

Orientations of Carboxylate Groups Coupled to the Mn Cluster in the Photosynthetic Oxygen-Evolving Center As Studied by Polarized ATR-FTIR Spectroscopy

Mitsuhiro Iizasa, Hiroyuki Suzuki, Takumi Noguchi

Biochemistry > 2010 > 49 > 14 > 3074 - 3082

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Search results for: Takumi Noguchi

Evaluation of photosynthetic activities in thylakoid membranes by means of Fourier transform infrared spectroscopy

Exposure to nano-size titanium dioxide causes oxidative damages in human mesothelial cells: The crystal form rather than size of particle contributes to cytotoxicity

Molecular Analysis by Vibrational Spectroscopy

Time‐Resolved Crystallography of the Reaction Intermediate of Nitrile Hydratase: Revealing a Role for the Cysteinesulfenic Acid Ligand as a Catalytic Nucleophile

Time‐Resolved Crystallography of the Reaction Intermediate of Nitrile Hydratase: Revealing a Role for the Cysteinesulfenic Acid Ligand as a Catalytic Nucleophile

Fourier transform infrared difference and time-resolved infrared detection of the electron and proton transfer dynamics in photosynthetic water oxidation

Modified molecular interactions of the pheophytin and plastoquinone electron acceptors in photosystem II of chlorophyll d-containing Acaryochloris marina as revealed by FTIR spectroscopy

Identification of the basic amino acid residues on the PsbP protein involved in the electrostatic interaction with photosystem II

Development of a novel cryogenic microscope with numerical aperture of 0.9 and its application to photosynthesis research

Molecular interactions of the quinone electron acceptors Q_A, Q_B, and Q_C in photosystem II as studied by the fragment molecular orbital method

The PsbQ protein stabilizes the functional binding of the PsbP protein to photosystem II in higher plants

Photosystem II–Gold Nanoparticle Conjugate as a Nanodevice for the Development of Artificial Light-Driven Water-Splitting Systems

Herbicide effect on the photodamage process of photosystem II: Fourier transform infrared study

How Does the Q _B Site Influence Propagate to the Q _A Site in Photosystem II?

Interaction and Inhibitory Effect of Ammonium Cation in the Oxygen Evolving Center of Photosytem II

Structural Coupling of an Arginine Side Chain with the Oxygen-Evolving Mn ₄ Ca Cluster in Photosystem II As Revealed by Isotope-Edited Fourier Transform Infrared Spectroscopy

The Cyanobacteriochrome, TePixJ, Isomerizes Its Own Chromophore by Converting Phycocyanobilin to Phycoviolobilin

Energetics in Photosystem II from Thermosynechococcus elongatus with a D1 protein encoded by either the psbA1 or psbA3 gene

Structures and Binding Sites of Phenolic Herbicides in the Q _B Pocket of Photosystem II

Orientations of Carboxylate Groups Coupled to the Mn Cluster in the Photosynthetic Oxygen-Evolving Center As Studied by Polarized ATR-FTIR Spectroscopy

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