Article
Polymer Science
Jiale Zhang, He Cheng, Zihao Meng, Hao Zhang, Zhenyang Luo, Mohd. Muddassir, Xiang Li, Ye Sha
Summary: The controlled polymerization of the norbornene-functionaliz meta[6]cycloparaphenylene (m[6]CPP) monomer through ROMP is reported for the first time. The pendant m[6]CPP nanohoop is incorporated away from the main polymer backbone. The unique photophysical properties of m[6]CPP are retained in the polymer, demonstrating the convergence of precise organic synthesis and macromolecular chemistry for functional carbon-based materials.
Article
Biochemistry & Molecular Biology
Nadezda A. Brazhe, Evelina I. Nikelshparg, Adil A. Baizhumanov, Vera G. Grivennikova, Anna A. Semenova, Sergey M. Novikov, Valentyn S. Volkov, Aleksey V. Arsenin, Dmitry I. Yakubovsky, Andrey B. Evlyukhin, Zhanna V. Bochkova, Eugene A. Goodilin, Georgy V. Maksimov, Olga Sosnovtseva, Andrey B. Rubin
Summary: A novel sensor using label-free surface-enhanced Raman spectroscopy (SERS) has been developed to identify conformational changes in cytochrome c heme and elucidate its role in functioning mitochondria. It has been shown that molecule bond vibrations assessed by SERS are a reliable indicator of heme conformation, which regulates the efficiency of the mitochondrial respiratory chain and adjusts mitochondrial respiration to the cell's consumption of ATP.
FREE RADICAL BIOLOGY AND MEDICINE
(2023)
Article
Biochemistry & Molecular Biology
Federico Sebastiani, Chiara Baroni, Gaurav Patil, Andrea Dali, Maurizio Becucci, Stefan Hofbauer, Giulietta Smulevich
Summary: Monoderm bacteria accumulate heme b through the coproporphyrin-dependent biosynthesis pathway. The decarboxylation of propionate groups in coproheme by coproheme decarboxylase (ChdC) is a stepwise process. H-bond interactions in the pocket of ChdCs play a crucial role in stabilizing the active site and enzyme functionality, which were evaluated through characterization of mutants complexed with coproheme and heme b via spectroscopies.
Article
Chemistry, Applied
Diming Tan, Weiwen Chen, Zixin Yang, Minjing Rong, Rui Huang, Xiyang Wu, Weibin Bai, Lingmin Tian
Summary: This study aimed to link propionic acid (PA) and fructooligosaccharides (FOS) to form propionyl-FOS capable of delivering PA to the colon. Chemically synthesized propionyl-FOS (AP-FOS) showed higher esterification degree than enzymatically synthesized ones (P-FOS). AP-FOS also exhibited higher diversity. In vitro fermentation experiments showed that both AP-FOS and P-FOS groups had higher levels of PA and butyric acid compared to FOS group. However, P-FOS showed better fermentability and prebiotic effects through gut microbiota modulation compared to FOS.
FOOD HYDROCOLLOIDS
(2023)
Review
Biochemistry & Molecular Biology
Vitaliy B. Borisov, Elena Forte
Summary: Hydrogen sulfide (H2S) is known as the third gasotransmitter, playing important roles in organisms but can be toxic at high concentrations. In mammalian cells, H2S primarily targets mitochondria, blocking oxidative phosphorylation and causing cell death. In the gut, where H2S concentration is high, non-canonical bd-type terminal oxidases of Escherichia coli play a crucial role in maintaining aerobic respiration and growth.
BIOCHEMISTRY-MOSCOW
(2021)
Article
Agricultural Engineering
Xizi Long, Akihiro Okamoto
Summary: Alteration of outer membrane composition in Shewanella oneidensis MR-1 significantly enhanced the electron flow rate via cell-surface redox protein MtrC. Culturing at lower temperatures increased the rate of extracellular electron transfer, suggesting that modification of membrane composition may be a novel strategy for improving the efficiency of EET-based technologies.
BIORESOURCE TECHNOLOGY
(2021)
Article
Polymer Science
Jinbao Xu, Weiguo Liang, Jie Zhang, Zhixian Dong, Caihong Lei
Summary: This study presents an organic base-catalyzed esterification reaction method for the direct synthesis of side-chain functionalized PCL, with wide substrate applicability and mild reaction conditions, offering a versatile and robust protocol for the preparation of functional PCL-based polymers with high potential for biological applications.
EUROPEAN POLYMER JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Ruxin Liu, Yunjun Pan, Ning Wang, Dandan Tang, Vlada B. Urlacher, Shengying Li
Summary: Steroid drugs have significant anti-inflammatory, anti-allergic, and endocrine-regulating effects. However, the low activity of CYP11A1 enzymes restricts their industrial application. Through investigation and characterization of different CYP11A1 enzymes, the optimal enzyme pair for higher activity is identified.
JOURNAL OF STEROID BIOCHEMISTRY AND MOLECULAR BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Elena Forte, Martina R. Nastasi, Vitaliy B. Borisov
Summary: The bd-II cytochrome in Escherichia coli has been shown to efficiently scavenge hydrogen peroxide and produce molecular oxygen. This function could play a significant role in the bacterium's defense against oxidative stress.
BIOCHEMISTRY-MOSCOW
(2022)
Review
Biochemistry & Molecular Biology
Reinhard Schweitzer-Stenner
Summary: This article reviews the research conducted on various class I cytochrome c proteins over the past 50 years, focusing on the relevance of symmetry-lowering heme-protein interactions and their effect on the function of cytochrome c. It provides an overview of spectroscopic studies exploring the electronic structure of the heme group in these proteins, as well as a theoretical framework for understanding the physical chemistry underlying the function of all heme proteins.
Article
Integrative & Complementary Medicine
Jingwei Zhang, Lin Jiao, Jiajia Song, Tao Wu, Hao Bai, Tangyuheng Liu, Zhenzhen Zhao, Xuejiao Hu, Binwu Ying
Summary: This study found that variants of the rs4435111 and rs2755237 loci in the FOXO1 gene were associated with susceptibility to ATDH. Co-administration of INH/RIF promoted the transfer of FOXO1 from the cytoplasm to the nucleus, but the functional significance of its nuclear translocation requires further verification.
EVIDENCE-BASED COMPLEMENTARY AND ALTERNATIVE MEDICINE
(2021)
Review
Health Care Sciences & Services
Midori Yukino-Iwashita, Yuji Nagatomo, Akane Kawai, Akira Taruoka, Yusuke Yumita, Kazuki Kagami, Risako Yasuda, Takumi Toya, Yukinori Ikegami, Nobuyuki Masaki, Yasuo Ido, Takeshi Adachi
Summary: Heart failure is a clinical syndrome with poor prognosis that has a global clinical and socioeconomic burden. Accumulating evidence suggests that short-chain fatty acids, derived from gut microbiota, may contribute to the pathology of various diseases, including heart failure. However, the mechanisms and effects are not fully understood and require further investigation.
JOURNAL OF PERSONALIZED MEDICINE
(2022)
Review
Biochemistry & Molecular Biology
Li-Yang Wei, Jiu-Kai Zhang, Lei Zheng, Ying Chen
Summary: Intestinal inflammation, such as IBD, has become a global epidemic disease with increasing awareness of the nutritional and medicinal value of food components. SFN, a member of isothiocyanates, shows potential as a dietary supplement for promoting intestinal health due to its various physiological activities, including anti-inflammatory effects.
Review
Polymer Science
Yi-ning Fan, Zi-fan Yang, Jia-hui Wu, Ling Zhao, Wei Xia, Long-long Zhang, Jie Wang, Ji-yu Chen, Ming-he Sun, Jia-hua Li, Shuang Yang, Er-qiang Chen
Summary: This article summarizes the research progress, structural characteristics, and functional applications of cylindrical side-chain polymer systems. Although the physical mechanisms underlying the complex relaxation behavior of these polymers are not fully understood, studying them will provide a theoretical foundation for creating new viscoelastic materials.
ACTA POLYMERICA SINICA
(2023)
Article
Microbiology
Yuan Feng, Thi Phuong Nam Bui, Alfons J. M. Stams, Sjef Boeren, Irene Sanchez-Andrea, Willem M. de Vos
Summary: This study demonstrates that Eubacterium maltosivorans is highly versatile in converting low-energy fermentation end-products in the human gut into butyrate and propionate while preventing the formation of trimethylamine by converting betaine and other quaternary amines in bacterial microcompartments. The strain produces different proteins under different growth conditions, indicating its adaptability and diversity.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemical Research Methods
Teruyuki Miyake, Ryosei Tamaki, Moeko Asanuma, Yoji Fukada, Shun Hirota, Takashi Matsuo
BIOCONJUGATE CHEMISTRY
(2020)
Article
Chemistry, Multidisciplinary
Rini Majumder, Snigdha Roy, Kentaro Okamoto, Satoshi Nagao, Takashi Matsuo, Partha Pratim Parui
Review
Chemistry, Multidisciplinary
Shun Hirota, Satoshi Nagao
Summary: Cytochrome c is a multifunctional water-soluble heme protein that plays important roles in apoptosis and the mitochondrial respiratory chain. Through 3D domain swapping, cytochrome c molecules can form oligomers and polymers. Cytochrome c interacts with cardiolipin on the inner mitochondrial membrane, and its peroxidase activity increases when interacting strongly with cardiolipin.
BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN
(2021)
Article
Chemistry, Multidisciplinary
Catur Jatmika, Kazumo Wakabayashi, Ryosei Tamaki, Naoki Akiyama, Ibuki Nakamura, Shun Hirota, Hiroyasu Yamaguchi, Takashi Matsuo
Review
Chemistry, Multidisciplinary
Hulin Tai, Shun Hirota, Sven T. Stripp
Summary: Hydrogenases are metalloenzymes capable of efficiently catalyzing proton reduction and hydrogen oxidation. This Account discusses the use of photochemistry and infrared spectroscopy to study the dynamic hydrogen-bonding changes in [NiFe]- and [FeFe]-hydrogenases, revealing distinct structures and functions in these systems.
ACCOUNTS OF CHEMICAL RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Satoshi Nagao, Ayaka Idomoto, Naoki Shibata, Yoshiki Higuchi, Shun Hirota
Summary: In this study, metal-binding sites were introduced into proteins using 3D domain swapping, resulting in stable dimeric myoglobins with metal-binding sites. The mutants with specific metal-binding sites showed similarities in spectroscopic properties with wild-type myoglobin. The metal ions bound to the metal-binding sites in the domain-swapped myoglobin dimers exhibited different coordination structures, demonstrating the potential to construct artificial metalloproteins using domain swapping.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2021)
Article
Multidisciplinary Sciences
Masaru Yamanaka, Tsuyoshi Mashima, Michio Ogihara, Mei Okamoto, Takayuki Uchihashi, Shun Hirota
Summary: Ferritin can form a hydrogel from concentrated apoferritin solutions through acid denaturation and subsequent neutralization, with a water content of approximately 80%. The hydrogel exhibits stability and the ability to adsorb and release metal ions, demonstrating a unique property of ferritin as a potential material for future biomaterial design.
Article
Biochemical Research Methods
Takahiro Imanishi, Koji Nishikawa, Midori Taketa, Katsuhiro Higuchi, Hulin Tai, Shun Hirota, Hironobu Hojo, Toru Kawakami, Kiriko Hataguchi, Kayoko Matsumoto, Hideaki Ogata, Yoshiki Higuchi
Summary: This study investigated the binding state of CO with the hydrogenase in Citrobacter sp. S-77 using activity assays, spectroscopic techniques, and X-ray crystallography. The results showed a positive correlation between CO tolerance and oxygen tolerance in [NiFe]-hydrogenases.
ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS
(2022)
Review
Chemistry, Multidisciplinary
Sven T. Stripp, Benjamin R. Duffus, Vincent Fourmond, Christophe Leger, Silke Leimkueshler, Shun Hirota, Yilin Hu, Andrew Jasniewski, Hideaki Ogata, Markus W. Ribbe
Summary: Gases like H-2, N-2, CO2, and CO are important feedstock for green energy conversion and as sources of nitrogen and carbon. However, their industrial transformation and production require significant energy input, whereas nature efficiently converts them at ambient conditions using gas-processing metalloenzymes (GPMs). In this review, the importance of the cofactor/protein interface in GPMs is emphasized, and the effects of second and outer coordination sphere on catalytic activity are discussed.
Article
Chemistry, Physical
Mohan Zhang, Hulin Tai, Sachiko Yanagisawa, Masaru Yamanaka, Takashi Ogura, Shun Hirota
Summary: The peroxidase activity of cytochrome c increases when Met80 dissociates from the heme iron, which is related to the initial cyt c membrane permeation step of apoptosis. This study analyzed the resonance Raman spectra of Met80-depleted horse cytochrome c (M80A cyt c) to understand the heme ligand properties of Met80-dissociated cyt c. The results showed that the frequencies of Fe-His stretching and Fe-O2 stretching modes of M80A cyt c were higher than other His-ligated heme proteins, indicating strong heme coordination and the imidazolate character of His18. Moreover, the frequencies of the oxygenated species of M80A cyt c were observed to have a positive linear relationship, suggesting that the Fe-O and O-O bonds are important for the peroxidase activity when Met80 dissociates from the heme iron.
JOURNAL OF PHYSICAL CHEMISTRY B
(2023)
Article
Chemistry, Multidisciplinary
Shun Hirota, Chun-Liang Chiu, Chieh-Ju Chang, Pei-Hua Lo, Tien Chen, Hongxu Yang, Masaru Yamanaka, Tsuyoshi Mashima, Cheng Xie, Hiroshi Masuhara, Teruki Sugiyama
Summary: The spatial and temporal control of amyloid fibril formation of cytochrome c was achieved using a combined method of disulfide bond cross-linking of cysteine-introduced variants and optical trapping. It was identified that the structural change in the region containing Ala83 is essential for amyloid fibril formation.
CHEMICAL COMMUNICATIONS
(2022)
Article
Chemistry, Multidisciplinary
Cheng Xie, Hiromitsu Shimoyama, Masaru Yamanaka, Satoshi Nagao, Hirofumi Komori, Naoki Shibata, Yoshiki Higuchi, Yasuteru Shigeta, Shun Hirota
Summary: Research has shown that enhancing the hydrogen bond network at the hinge region can stabilize the structure of myoglobin dimer, further supporting the connection between myoglobin dimer and monomer through 3D domain swapping.
Review
Chemistry, Multidisciplinary
Shun Hirota, Tsuyoshi Mashima, Naoya Kobayashi
Summary: Supramolecules, formed by assembly of multiple molecules through noncovalent interactions, exhibit unique properties and have applications in both biology and chemistry. The design and creation of supramolecular proteins are leading to the development of new enzymes, biomaterials, and drug delivery systems. Studies on the regulation of supramolecular proteins are increasing, with methods like disulfide bond and metal coordination being utilized for their construction.
CHEMICAL COMMUNICATIONS
(2021)
Article
Chemistry, Inorganic & Nuclear
Catur Jatmika, Kenta Goshima, Kazumo Wakabayashi, Naoki Akiyama, Shun Hirota, Takashi Matsuo
DALTON TRANSACTIONS
(2020)
Article
Biochemistry & Molecular Biology
Robby Noor Cahyono, Masaru Yamanaka, Satoshi Nagao, Naoki Shibata, Yoshiki Higuchi, Shun Hirota