Article
Biochemistry & Molecular Biology
Chao Guo, Robert J. Chadwick, Adam Foulis, Giada Bedendi, Andriy Lubskyy, Kyle J. Rodriguez, Michela M. Pellizzoni, Ross D. Milton, Rebecca Beveridge, Nico Bruns
Summary: In this study, the reconstitution of myoglobin variants with different cofactors showed improved catalytic efficiency for guaiacol and TCP substrates. The incorporation of Fe-Ce6 and Mn-Ce6 cofactors into myoglobin scaffold enhanced peroxidase activity.
Article
Biochemistry & Molecular Biology
Christopher M. Lemon
Summary: Heme proteins are versatile platforms for developing new functional proteins. This review explores the replacement of heme with non-porphyrin cofactors and the unique properties and reactivity of these hybrids. These substitutions can lead to the development of superior catalysts and provide opportunities for innovative antibiotic strategies.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2023)
Article
Chemistry, Inorganic & Nuclear
Juan Cruz Palermo, Melisa Carllinni Colombo, Jonathan A. A. Semelak, Magali F. Scocozza, Fernando M. M. Boubeta, Daniel H. H. Murgida, Dariio A. Estrin, Sara E. E. Bari
Summary: This study investigated the mechanism of metal centered reduction of metmyoglobin by sulfide species under an argon atmosphere. The formation of MbFe(II) at varying ratios of excess sulfide indicated an autocatalytic reaction mechanism. The reaction rate increased at higher alkaline pHs, suggesting HS- as the relevant reactive species for the reduction. The proposed reaction mechanism involves the formation of sulfanyl radical, disulfanuidyl/disulfanudi-idyl radical anions and disulfide, and the autocatalysis is attributed to the behavior of HSS- as a fast reductant.
INORGANIC CHEMISTRY
(2023)
Review
Cell Biology
Amy E. Medlock, J. Catrice Hixon, Tawhid Bhuiyan, Paul A. Cobine
Summary: Metals are essential for human survival and development, but mishandling them can be toxic to cells. Mitochondrial metals play critical roles in enzymatic activities and cofactor formation. Changes in mitochondrial physiology may affect metal homeostasis and cofactor assembly.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Luis Gutierrez-Rus, Gloria Gamiz-Arco, J. A. Gavira, Eric A. Gaucher, Valeria A. Risso, Jose M. Sanchez-Ruiz
Summary: Enzymes catalyze the chemical reactions of life, and for nearly half of known enzymes, catalysis requires the binding of cofactors. This study identifies heme binding as a potential driver for the formation of ancestral polypeptide-cofactor complexes. Binding of heme to a flexible region in the ancestral structure enhances peroxidation catalysis by protecting the bound heme from degradation processes, resulting in a longer lifetime and higher effective concentration for the catalyst. This finding suggests that the protection of catalytic cofactors by polypeptides is a general mechanism to enhance catalysis and may have benefited primordial polypeptide-cofactor associations.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
Article
Chemistry, Multidisciplinary
Seongchul Park, Jooyoung Kim, Manho Lim
Summary: The photoexcitation dynamics of N3-bound ferric myoglobin (MbN3) were investigated, and a new absorption band was observed. This new absorption could arise from the high-spin species or the remaining N3 within the protein. The implications of both interpretations are discussed.
BULLETIN OF THE KOREAN CHEMICAL SOCIETY
(2023)
Article
Biochemistry & Molecular Biology
Shuai Tang, Ai-Qun Pan, Xiao-Juan Wang, Shu-Qin Gao, Xiang-Shi Tan, Ying-Wu Lin
Summary: In this study, it was found for the first time that myoglobin, in addition to its oxygen carrier role, also has novel beta-lactamase activity. The activity can be regulated by engineered disulfide bonds or the addition of imidazole.
Article
Engineering, Environmental
Guang-Rong Wu, Jia-Kun Xu, Li-Juan Sun, Ying-Fu Li, Shu-Qin Gao, Ying-Wu Lin
Summary: This study achieved the direct and efficient degradation of emerging pollutants in the aquatic environment using engineered heme enzymes based on myoglobin. The enzyme showed higher degradation rates compared to native enzymes, and multiple degradation products were identified, providing insights into possible degradation mechanisms.
JOURNAL OF ENVIRONMENTAL CHEMICAL ENGINEERING
(2023)
Article
Engineering, Biomedical
Tatsuya Yamashita, Hiroki Matsuda, Kyohei Koizumi, Logu Thirumalaisamy, Myeongok Kim, Lumi Negishi, Hitoshi Kurumizaka, Yoriko Tominaga, Yoshihiro Takagi, Ken Takai, Taiga Okumura, Hidekazu Katayama, Masaki Horitani, Nazmul Ahsan, Yoshitaka Okada, Koji Nagata, Yohey Suzukif, Michio Suzukia
Summary: The scaly-foot gastropod, which lives in the deep-sea zone of thermal vents, has a black shell and scales containing iron sulfide minerals. Researchers extracted organic molecules from the gastropod's shell to develop a low-cost and eco-friendly method for synthesizing pyrite nanoparticles, which have potential applications in solar panels.
ACTA BIOMATERIALIA
(2023)
Article
Biochemistry & Molecular Biology
Mary Grace I. Galinato, Aaron M. Trail, Olivia R. Steinbeck, Zhuoyan Si, Anthony M. Rodland, Jaclyn Gowen
Summary: The esterification of heme propionates results in a minor structural change that significantly increases the NiR rate in DME-Mb. The lower pKa observed in DME-Mb enhances the tendency of His64 towards protonation, leading to an increase in the NiR rate. The nitrite binding constant for DME-MbIII is also greater than wt MbIII, indicating a correlation between nitrite reductase activity and electrostatic behavior.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Hanna Kwon, Jaswir Basran, Chinar Pathak, Mahdi Hussain, Samuel L. Freeman, Alistair J. Fielding, Anna J. Bailey, Natalia Stefanou, Hazel A. Sparkes, Takehiko Tosha, Keitaro Yamashita, Kunio Hirata, Hironori Murakami, Go Ueno, Hideo Ago, Kensuke Tono, Masaki Yamamoto, Hitomi Sawai, Yoshitsugu Shiro, Hiroshi Sugimoto, Emma L. Raven, Peter C. E. Moody
Summary: Oxygen activation in heme enzymes requires the formation of high oxidation states of iron, known as ferryl heme, with two intermediates known as Compound I and Compound II. Recent crystal structure studies of Compound II in cytochrome c peroxidase and ascorbate peroxidase reveal differences in iron-oxygen bond lengths, suggesting fine-tuning of the ferryl species across closely related peroxidase enzymes.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Review
Chemistry, Inorganic & Nuclear
Koji Oohora, Takashi Hayashi
Summary: The assembly of metal complexes of non-natural porphyrinoids within protein matrices provides a useful strategy for creating artificial metalloenzymes that catalyze otherwise unfavorable reactions. This approach enhances the catalytic activities of the cofactors and allows monitoring of active intermediates.
DALTON TRANSACTIONS
(2021)
Article
Biochemical Research Methods
Daniel W. Woodall, Lucas W. Henderson, Shannon A. Raab, Kenji Honma, David E. Clemmer
Summary: The thermal denaturation of holomyoglobin in solution was characterized using ion mobility spectrometry and mass spectrometry techniques to investigate stability and structural changes. Two experimental approaches were utilized to induce thermal denaturation, highlighting the stabilizing effects of heme binding on the protein's stability.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2021)
Article
Chemistry, Analytical
Nicole D. Wagner, Austin B. Moyle, Juan P. Rincon Pabon, Michael L. Gross
Summary: Protein footprinting is a method to measure protein conformational changes, and this study repurposes a hydrogen-deuterium exchange MS system for specific amino acid footprinting MS analysis. The method is proven to be effective in reaction optimization and monitoring ligand binding systems.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Guang-Rong Wu, Li-Juan Sun, Jia-Kun Xu, Shu-Qin Gao, Xiang-Shi Tan, Ying-Wu Lin
Summary: The study successfully designed an efficient peroxidase for degrading tetracycline antibiotics, achieving degradation rates of approximately 90% to 100%. Various analytical methods were used to identify degradation products and proposed potential degradation mechanisms.
Article
Chemistry, Multidisciplinary
Koji Oohora, Shota Hirayama, Tsuyoshi Mashima, Takashi Hayashi
JOURNAL OF PORPHYRINS AND PHTHALOCYANINES
(2020)
Article
Biochemical Research Methods
Teruyuki Miyake, Ryosei Tamaki, Moeko Asanuma, Yoji Fukada, Shun Hirota, Takashi Matsuo
BIOCONJUGATE CHEMISTRY
(2020)
Article
Chemistry, Multidisciplinary
Shota Hirayama, Koji Oohora, Takayuki Uchihashi, Takashi Hayashi
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2020)
Article
Chemistry, Multidisciplinary
Rini Majumder, Snigdha Roy, Kentaro Okamoto, Satoshi Nagao, Takashi Matsuo, Partha Pratim Parui
Article
Chemistry, Multidisciplinary
Catur Jatmika, Kazumo Wakabayashi, Ryosei Tamaki, Naoki Akiyama, Ibuki Nakamura, Shun Hirota, Hiroyasu Yamaguchi, Takashi Matsuo
Article
Chemistry, Inorganic & Nuclear
Yuta Miyazaki, Koji Oohora, Takashi Hayashi
INORGANIC CHEMISTRY
(2020)
Article
Chemistry, Inorganic & Nuclear
Shunsuke Kato, Akira Onoda, Alexander R. Grimm, Kengo Tachikawa, Ulrich Schwaneberg, Takashi Hayashi
INORGANIC CHEMISTRY
(2020)
Review
Chemistry, Physical
Takashi Matsuo
Summary: This review article discusses the application of designed Hoveyda-Grubbs-type complexes in bio-relevant studies, addressing issues and strategies when used in aqueous media, and controlling the reactivities of the complexes through structural modification. It also introduces a recent finding on the ruthenium complex transfer reaction between Hoveyda-Grubbs-type complexes and biomolecules.
Article
Biochemistry & Molecular Biology
Ibuki Nakamura, Hiroshi Amesaka, Mizuho Hara, Kento Yonezawa, Keisuke Okamoto, Hironari Kamikubo, Shun-ichi Tanaka, Takashi Matsuo
Summary: This study investigates the applicability of synthetic binding proteins, specifically monobodies, in regulating the functions of proteins that undergo large conformational changes. The results show that monobodies can capture and stabilize specific conformational states of proteins, thereby affecting their functions. This suggests that monobody-based modulators can regulate the functions of proteins with significant conformational changes.
Article
Chemistry, Inorganic & Nuclear
Tsubasa Kinugawa, Takashi Matsuo
Summary: This paper investigates the effect of adding chalcogen atoms (sulfur or oxygen) to the benzylidene ligand of the Hoveyda-Grubbs second-generation complex (HG-II) on its catalytic properties. The study shows that the sulfur ligand enhances the stability and methanol tolerance of the catalyst, while the oxygen ligand decreases catalyst durability.
DALTON TRANSACTIONS
(2023)
Article
Chemistry, Inorganic & Nuclear
Yuji Mikata, Marin Tanaka, Saori Yasuda, Aya Tsuruta, Taeka Hagiwara, Hideo Konno, Takashi Matsuo
Summary: BQDMEN and its 6-methoxyquinoline derivative (6-MeOBQDMEN) are fluorescent sensors with minor response to Zn2+ and Cd2+. However, when three methoxy substituents are introduced at the 5,6,7-position of the quinoline rings, the fluorescent metal ion selectivity is reversed to favor Cd2+. This reversal of preference is also valid for 1,3-propanediamine derivatives. The dinuclear cadmium complex is suggested to be the key component for the fluorescent Cd2+ selectivity.
DALTON TRANSACTIONS
(2023)
Article
Chemistry, Inorganic & Nuclear
Yuji Mikata, Mizuho Uchida, Hinata Koike, Sunao Shoji, Yutaka Ohsedo, Yasushi Kawai, Takashi Matsuo
Summary: Eighteen mononuclear copper(II) complexes with oxygen-containing N4O1 pentadentate ligands were synthesized and the effects of substitution of (iso)quinoline heteroaromatics at different positions on the properties of copper(II) complexes were investigated. The results indicate that the steric hindrance caused by the peri hydrogen atom in quinoline at the Ar-3 position enhances the coordination ability of quinoline nitrogen and ether oxygen atoms to the metal center. The quinoline substitution at the Ar-3 site exhibits an opposite effect compared with those at the Ar-1 and Ar-2 sites in the absorption spectra.
DALTON TRANSACTIONS
(2023)
Article
Chemistry, Inorganic & Nuclear
Yuji Mikata, Minori Kaneda, Shizuka Yonemura, Miyu Akedo, Hideo Konno, Takashi Matsuo
Summary: The selectivity of TQEN towards metal ions was altered by introducing different substituents, with 8-MOMOTQEN showing high selectivity and sensitivity towards Cd2+. The MOMO group played a crucial role in enhancing fluorescent metal-ion selectivity.
DALTON TRANSACTIONS
(2022)
Article
Chemistry, Organic
Takashi Matsuo
Summary: Hoveyda-Grubbs-type complexes with ruthenium center coordinated by an N-heterocyclic carbene and a 2-alkoxybenzylidene ligands are important catalysts for olefin metathesis with applications in biochemical research. Structural modification allows for application of these complexes to biomolecules, while studies on the mechanism of olefin metathesis in aqueous media have been conducted.
JOURNAL OF SYNTHETIC ORGANIC CHEMISTRY JAPAN
(2021)
Article
Chemistry, Inorganic & Nuclear
Catur Jatmika, Kenta Goshima, Kazumo Wakabayashi, Naoki Akiyama, Shun Hirota, Takashi Matsuo
DALTON TRANSACTIONS
(2020)