Article
Biochemistry & Molecular Biology
Rosanna Puopolo, Giovanni Gallo, Danila Limauro, Patrizia Contursi, Gabriella Fiorentino
Summary: Arsenic pollution is a global issue, and biosensors based on enzymatic inhibition have been developed for arsenic detection. The study found that both As(V) and As(III) act as non-competitive inhibitors on the phosphatase activity of TtArsC, with As(V) showing a stronger inhibitory effect. The inhibition-based biosystem is selective for As(V) and exhibits good sensitivity and a low detection limit.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Chemistry, Multidisciplinary
Pilar Hoyos, Almudena Perona, Teodora Bavaro, Francesca Berini, Flavia Marinelli, Marco Terreni, Maria J. Hernaiz
Summary: Molecules with carbohydrate moieties are important in fighting bacterial and viral infections, making the design of new carbohydrate-containing drugs or vaccines a topic of great interest. Conventional chemical synthesis methods for these compounds face challenges, and the search for sustainable processes using biocatalysts and eco-friendly solvents is vital. Enzymes have become preferred catalysts in glycochemistry and glycobiology, and their use in synthesizing carbohydrate-based drugs has grown rapidly in recent years. This field represents an example of how biocatalysis can contribute to the development of glycan-based therapies and the fight against antibiotic resistance.
ACCOUNTS OF CHEMICAL RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
K. Dhanalakshmi, Seiki Kuramitsu, Shigeyuki Yokoyama, Kumarevel Thirumananseri, Karthe Ponnuraj
Summary: This study reports the crystal structure of arginase from Thermus thermophilus (TtArginase), and compares it with other homologous structures. The results show that TtArginase is more stable compared to its mesophilic counterpart, Bacillus subtilis arginase (BsArginase). Additionally, the study reveals the critical role of metal ions in both the catalytic function and maintenance of proper active site geometry. These findings are important for optimizing the enzymatic action of arginase in various conditions.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Microbiology
Roberto Gonzalez-Gonzalez, Pablo Fucinos, Elisa Beneventi, Olalla Lopez-Lopez, Begona Pampin, Ramon Rodriguez, Maria Isabel Gonzalez-Siso, Jacobo Cruces, Maria Luisa Rua
Summary: The thermoalkalophilic membrane-associated esterase KLEST-3S showed high thermal stability, activity in organic solvents and detergents, and catalytic ability in various reactions, indicating its potential for industrial bioconversions.
Article
Biotechnology & Applied Microbiology
Akihide Yoshihara, Yota Takamatsu, Susumu Mochizuki, Hiromi Yoshida, Ryoji Masui, Ken Izumori, Shigehiro Kamitori
Summary: In this study, the structural and biochemical characteristics of transketolase from the thermophilic bacterium Thermus thermophilus HB8 (TtTK) were investigated. TtTK showed remarkable thermostability and efficiently catalyzed the formation of 7-carbon ketoses from various sugars. The results demonstrate the potential of TtTK as an enzyme producing a rare sugar, heptulose.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Teruyuki Kobayashi, Akihiko Sakamoto, Keiko Kashiwagi, Kazuei Igarashi, Toshiyuki Moriya, Tairo Oshima, Yusuke Terui
Summary: In the extreme thermophile Thermus thermophilus, changes in pH result in significant alterations in the composition and content of polyamines within the cells, particularly impacting cell growth under alkaline conditions. pH stress is exacerbated due to intracellular depletion of polyamines possessing a diaminobutane moiety induced by unusual changes in polyamine biosynthesis under high pH conditions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
Yuko Murayama, Haruhiko Ehara, Mari Aoki, Mie Goto, Takeshi Yokoyama, Shun-ichi Sekine
Summary: Transcription termination is an essential step in gene regulation, and is mediated by the RNA translocase/helicase Rho in bacteria. The cryo-electron microscopy structure of the Thermus thermophilus RNA polymerase elongation complex (EC) bound to Rho reveals the binding sites and interactions between Rho and RNA polymerase. The study also suggests a general basis for gene regulation, as the Rho binding site overlaps with other macromolecule binding sites.
Article
Biochemistry & Molecular Biology
Francesca Coscia, Jan Lowe
Summary: Lon protease in bacteria is an ATP-dependent protease targeting misfolded and folded substrates, with the N-terminal domains facilitating substrate recognition and degradation. The full-length structure of Lon protease from Thermus thermophilus reveals a unique architecture essential for substrate sensing and entry into the AAA+ ring, confirming its role in degrading substrates in bacteria.
Article
Biochemistry & Molecular Biology
Sebastian Dorawa, Olesia Werbowy, Magdalena Plotka, Anna-Karina Kaczorowska, Joanna Makowska, Lukasz P. Kozlowski, Olafur H. Fridjonsson, Gudmundur O. Hreggvidsson, Arnthor Aevarsson, Tadeusz Kaczorowski
Summary: We performed a structural and functional analysis of the DNA polymerase from the thermophilic Thermus thermophilus MAT72 phage vB_Tt72. The enzyme showed low sequence identity to DNA polymerases from other families, but high similarity to two uncharacterized DNA polymerases from other T. thermophilus phages. We found that the enzyme exists as a monomer in solution and has optimal activity at pH 8.5, 25 mM KCl, and 0.5 mM Mg2+. Site-directed analysis revealed critical residues for the enzyme's activity. Despite its source, the enzyme itself did not exhibit high thermoresistance, but could be protected against thermal inactivation by specific compounds. Our study also demonstrated that the enzyme has moderate thermal stability.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
K. Dhanalakshmi, Seiki Kuramitsu, Shigeyuki Yokoyama, Thirumananseri Kumarevel, Karthe Ponnuraj
Summary: The crystal structure of pyrrolidone carboxyl peptidase from Thermus thermophilus (TtPCP) was solved and refined at 1.9 angstrom resolution using the molecular replacement method. Comparing TtPCP with its structural homologs, it was found that the putative thermal stability of TtPCP may be attributed to more intra and inter-molecular hydrogen bonds, hydrophobic and ion pair interactions. This structural information of TtPCP can contribute to understanding the intrinsic stability of thermophilic proteins and can be useful for protein engineering.
BIOPHYSICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Changjing Yuan, Jie Fang, Weiling Fu
Summary: Recent advances in prokaryotic Argonaute proteins (pAgos) have provided new insights into the development of pAgos-based nucleic acid detection platforms. However, the current challenge lies in achieving isothermal detection using pAgos. This study introduces a true isothermal amplification strategy called Thermus thermophilus Argonaute-based thermostable exponential amplification reaction (TtAgoEAR), which allows for RNA detection with ultra-sensitivity and single-nucleotide resolution at a constant temperature of 66 degrees C. The results demonstrate the potential of TtAgoEAR for reliable and easy RNA detection in point-of-care diagnosis and field analysis.
ANALYTICAL CHEMISTRY
(2023)
Article
Cell Biology
Kim Shortall, Edel Durack, Edmond Magner, Tewfik Soulimane
Summary: The thermophilic ALDH(Tt) has been found to possess dual enzymatic activity and broad substrate specificity, showing activity for a range of aldehydes and ester substrates. However, it may exhibit differing levels of activity towards specific substrates with para-substituted benzaldehydes being efficiently processed while ortho-substituted ones show no catalytic activity.
Article
Biotechnology & Applied Microbiology
Ziqi Wang, Zitong Wang, Fan Zhang, Lingyi Wu
Summary: This study systematically explores the properties of Thermus thermophilus Argonaute (TtAgo), including its dependence on guide DNA (gDNA) length, substrates' length, and the position of gDNA complementary region on the substrate. Based on these properties, an exonuclease III-assisted target-recycled amplification system (exoAgo) was constructed for sensitive miRNA detection. The results show that exoAgo can be used for miRNA profiling with a detection limit of 12.2 pM, single-base resolution, and good performance for complex sample detection, indicating the great application potential of Ago in nucleic acid detection.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Microbiology
Huihui Wan, Xiaoying Ouyang, Ting Yang, Tianyun Ye, Minfei Jin, Jing Huang
Summary: In this study, the 4GT gene was cloned and expressed, and its catalytic function and expression conditions were investigated. High yield of recombinant 4GT enzyme was obtained through optimization of fermentation process. This study provides valuable references for the characterization and expression of food-grade enzymes.
CURRENT MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Vladimir I. Timofeev, Ilya V. Fateev, Maria A. Kostromina, Yuliya A. Abramchik, Irina D. Konstantinova, Vladimir V. Volkov, Dmitry D. Lykoshin, Olga O. Mikheeva, Tatiana I. Muravieva, Roman S. Esipov, Inna P. Kuranova
Summary: Two recombinant purine nucleoside phosphorylases from Thermus thermophilus HB27 were purified and characterized. TthPNPI is specific to guanosine while TthPNPII is specific to adenosine. The oligomeric structures of these enzymes, as well as the key residues in their active sites, were analyzed. The crystal structure of TthPNPII was determined and its active site cavity was examined. The hexameric structure of TthPNPII, which is different from other purine nucleoside phosphorylases, was observed for the first time.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Chemistry, Multidisciplinary
Ning Wang, Hiroki Hasegawa, Cheng-yuan Huang, Koichi Fukase, Yukari Fujimoto
CHEMISTRY-AN ASIAN JOURNAL
(2017)
Article
Biochemistry & Molecular Biology
Naoki Okamoto, Keisuke Mizote, Hiroe Honda, Akinori Saeki, Yasuharu Watanabe, Tomonni Yamaguchi-Miyamoto, Ryutaro Fukui, Natsuko Tanimura, Yuji Motoi, Sachiko Akashi-Takamura, Tatsuhisa Kato, Shigeto Fujishita, Takahito Kimura, Umeharu Ohto, Toshiyuki Shimizu, Takatsugu Hirokawa, Kensuke Miyake, Koichi Fukase, Yukari Fujimoto, Yoshinori Nagai, Kiyoshi Takatsu
JOURNAL OF BIOLOGICAL CHEMISTRY
(2017)
Article
Chemistry, Organic
Shinsuke Inuki, Ippei Ohta, Shunichi Ishibashi, Masayuki Takamatsu, Koichi Fukase, Yukari Fujimoto
JOURNAL OF ORGANIC CHEMISTRY
(2017)
Article
Chemistry, Organic
Shinsuke Inuki, Keisuke Sato, Takahide Fukuyama, Ilhyong Ryu, Yukari Fujimoto
JOURNAL OF ORGANIC CHEMISTRY
(2017)
Article
Chemistry, Multidisciplinary
Shinsuke Inuki, Emi Kashiwabara, Natsumi Hirata, Junichiro Kishi, Etsuko Nabika, Yukari Fujimoto
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2018)
Article
Chemistry, Medicinal
Yohei Arai, Shinsuke Inuki, Yukari Fujimoto
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2018)
Article
Chemistry, Organic
Yohei Arai, Kouhei Yokoyama, Yuki Kawahara, Qi Feng, Ippei Ohta, Atsushi Shimoyama, Shinsuke Inuki, Koichi Fukase, Kazuya Kabayama, Yukari Fujimoto
ORGANIC & BIOMOLECULAR CHEMISTRY
(2018)
Article
Chemistry, Organic
Shinsuke Inuki, Yukari Fujimoto
TETRAHEDRON LETTERS
(2019)
Article
Chemistry, Organic
Shinsuke Inuki, Keisuke Sato, Naoto Zui, Ryosuke Yamaguchi, Takanori Matsumaru, Yukari Fujimoto
JOURNAL OF ORGANIC CHEMISTRY
(2019)
Article
Chemistry, Analytical
Mutsuo Nuriya, Yosuke Ashikari, Takanori Iino, Takuya Asai, Jingwen Shou, Keiko Karasawa, Kaho Nakamura, Yasuyuki Ozeki, Yukari Fujimoto, Masato Yasui
Summary: The development of alkyne-tagged dopamine compounds (ATDAs) provides a minimally invasive and uniquely identifiable tool to mimic dopamine in neurons and brain tissues, allowing for detailed characterization of dopamine dynamics. This approach can potentially be applied to other small-sized neurotransmitters as well, facilitating research on their dynamics in the brain.
ANALYTICAL CHEMISTRY
(2021)
Article
Chemistry, Multidisciplinary
Tsung-Che Chang, Yoshiyuki Manabe, Keita Ito, Ryuku Yamamoto, Kazuya Kabayama, Shino Ohshima, Yoshie Kametani, Yukari Fujimoto, Chun-Cheng Lin, Koichi Fukase
Summary: Sialyl-Tn (STn), a tumor-associated antigen, has been investigated as a potential target for anti-cancer vaccine therapy. In this study, a self-adjuvanting STn-based vaccine was developed, consisting of a clustered STn antigen, a TLR1/2 ligand, and a T-helper cell epitope. This three-component vaccine was found to effectively induce the production of anti-STn antibodies. The immune responses induced by this vaccine were analyzed in detail, revealing the importance of TLR1/2 recognition and T-helper cell activation in antibody production.
Article
Chemistry, Organic
Yohei Arai, Shota Torigoe, Takanori Matsumaru, Sho Yamasaki, Yukari Fujimoto
ORGANIC & BIOMOLECULAR CHEMISTRY
(2020)
Article
Chemistry, Multidisciplinary
Takanori Matsumaru, Risa Ikeno, Yusuke Shuchi, Toshiki Iwamatsu, Takashi Tadokoro, Sho Yamasaki, Yukari Fujimoto, Atsushi Furukawa, Katsumi Maenaka
CHEMICAL COMMUNICATIONS
(2019)
Article
Biochemistry & Molecular Biology
Qianqian Wang, Roberta Marchetti, Sladjana Prisic, Kentaro Ishii, Yohei Arai, Ippei Ohta, Shinsuke Inuki, Susumu Uchiyama, Alba Silipo, Antonio Molinaro, Robert N. Husson, Koichi Fukase, Yukari Fujimoto
Article
Chemistry, Multidisciplinary
Toshihiko Aiba, Sae Suehara, Siew-Ling Choy, Yuuki Maekawa, Hannelore Lotter, Toshiaki Murai, Shinsuke Inuki, Koichi Fukase, Yukari Fujimoto
CHEMISTRY-A EUROPEAN JOURNAL
(2017)
Article
Chemistry, Organic
Faiza Diaba, Gisela Trenchs
Summary: The first violet light-mediated synthesis of gamma- and delta-lactams from N-alkenyl trichloroacetamides is reported in this paper. The reactions are conducted in tetrahydrofuran or 2-methyltetrahydrofuran as the sole solvent without catalysts or additives, under non-anhydrous conditions in an air atmosphere where the solvent serves as the radical initiator.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Feroze Hussain, Sajjad Ahmed, Ashiq Hussain Padder, Qazi Naveed Ahmed
Summary: This study reports a novel and efficient one-pot synthesis method for mixed phosphorotrithioates, which does not require supplementary additives and shows broad applicability.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Hyunjin Oh, Ikyon Kim
Summary: A new 1,2,4-triazole-pyrrolo[1,2-a]pyrazine hybrid system, 6-acylpyrrolo[1,2-a][1,2,4]triazolo[5,1-c]pyrazine, was synthesized using a catalyst-free method. This method involved sequential exposure of pyrrole-2-carbonitrile-derived substrates to DMF-DMA and acyl hydrazide, resulting in the formation of acylated pyrazine and 1,2,4-triazole rings, enabling the installation of various substituents at specific positions on the core skeleton.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Ming Yan, Si-fan Wang, Yong-po Zhang, Jin-zhong Zhao, Zhuo Tang, Guang-xun Li
Summary: Here we developed an efficient photocatalytic approach for the convenient preparation of sulfinamides. The reaction allows for the gram-scale preparation of sulfinamides and the one-pot synthesis of various sulfonyl amides.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Farzaneh Bandehali-Naeini, Zahra Tanbakouchian, Noushin Farajinia-Lehi, Nicolas Mayer, Morteza Shiri, Martin Breugst
Summary: Two tandem catalytic systems were developed for the synthesis of novel 3,4-disubstituted maleimides using the same Ugi adducts. Different maleimide structures can be synthesized using either Pd or Cu catalysis.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Article
Chemistry, Organic
Tanya Raghava, Anjan Chattopadhyay, Subhadeep Banerjee, Nivedita Sarkar
Summary: Amine substitution of two ortho fluorine atoms of tetrafluoroterephthalonitrile through SNAr chemistry is easily achievable. But further fluorine substitution is only possible under forcing conditions, yielding valuable fluorophores for bioimaging.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)
Review
Chemistry, Organic
Anju Chadha, Santosh Kumar Padhi, Selvaraj Stella, Sowmyalakshmi Venkataraman, Thangavelu Saravanan
Summary: Alcohol dehydrogenases are enzymes that use cofactors for oxidation or reduction reactions of alcohols or carbonyl compounds. They are utilized in green chemistry and have applications in the production of pharmaceuticals. Recombinant enzymes have solved the challenge of producing purified enzymes in large quantities. Engineered alcohol dehydrogenases have been used in asymmetric synthesis in industry. Various methods have been established for regenerating expensive cofactors to make the enzymatic process more efficient and economically viable.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2024)