Article
Biochemistry & Molecular Biology
Cinthia R. Millan, Martina Francis, Nitesh Kumar Khandelwal, Valery F. Thompson, Tarjani M. Thaker, Thomas M. Tomasiak
Summary: The study reveals the important role of the GRD motif in coordinating domain rearrangements in the heterodimeric peptide transporter TmrAB, with disruption of this network leading to different functional consequences and hinting at intrinsic asymmetry in the transporter. These findings suggest a mechanism by which the GRD motifs help coordinate a transition to an outward open conformation, with each half of the transporter playing a different role in the conformational cycle of TmrAB.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Engineering, Environmental
Lin Peng, Anqi Guo, Dongdong Chen, Peng Liu, Baoxiang Peng, Mingli Fu, Daiqi Ye, Peirong Chen
Summary: In this study, highly dispersed and electron-deficient Cu-based catalysts were fabricated using nitrogen-doped carbon nanotubes as support. The Cu/NCNT catalyst outperformed other catalysts in terms of activity, selectivity, and resistance against water. The mechanism of the NH3-SCO reaction was also revealed. This research provides a new route for the design of highly active, water-tolerant, and low-cost Cu catalysts for reducing slip NH3 emissions.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Alexey Llopiz, Marco A. Ramirez-Martinez, Leticia Olvera, Wendy Xolalpa-Villanueva, Nina Pastor, Gloria Saab-Rincon
Summary: The mechanism of glycoside hydrolases controlling reaction specificity is complex and embedded in their chemical structures. Structural differences were found between the 4-& alpha;-glucanotransferase from Thermotoga maritima (TmGTase) and the & alpha;-amylase from Thermotoga petrophila (TpAmylase), which led to the construction of variants with increased hydrolysis/transglycosylation ratio. Molecular dynamics simulations provided insights into the increase in ratio in terms of flexibility near the active site and the conformation of catalytic acid residues.
Article
Chemistry, Physical
D. Thomas, G. Kumar, N. S. Ghuge, K. K. Singh, S. Mukhopadhyay, K. T. Shenoy
Summary: In this study, the design aspects of a thermolysis reactor were investigated experimentally and a mathematical model was developed to understand the effect of critical parameters on conversion. The results showed that increasing the aspect ratio and heat transfer can enhance the conversion.
INTERNATIONAL JOURNAL OF HYDROGEN ENERGY
(2023)
Article
Chemistry, Multidisciplinary
Dario Faust Akl, Georgios Giannakakis, Andrea Ruiz-Ferrando, Mikhail Agrachev, Juan D. Medrano-Garcia, Gonzalo Guillen-Gosalbez, Gunnar Jeschke, Adam H. Clark, Olga V. Safonova, Sharon Mitchell, Nuria Lopez, Javier Perez-Ramirez
Summary: Copper catalysts are promising for Hg-free VCM production, but the optimal architecture at the nanoscale is not well understood. This study modifies the metal precursor and annealing temperature to prepare copper nanoparticles or single atoms on an unmodified carbon support. The performance of all materials converges to the stable VCM productivity of the single-atom catalyst. Advanced characterization techniques uncover a reaction-induced formation of low-valent, single atom Cu(I)Cl site motif, regardless of the initial nanostructure. The study highlights the sustainability of Cu-based catalysts for VCM production.
ADVANCED MATERIALS
(2023)
Review
Cell Biology
Gabriela Chiosis, Chander S. Digwal, Jane B. Trepel, Len Neckers
Summary: Heat shock protein 90 (HSP90) is a versatile chaperone that plays essential roles in protein folding and maturation. Recent studies have shown that HSP90 exists in multiple structural forms, including homo-oligomers and hetero-oligomers called epichaperomes. Various factors such as stress, post-translational modifications, and co-chaperones influence the formation of these oligomers and impact their functional diversity. Understanding the complex structure-function relationship of HSP90 is crucial for the development of effective therapeutics, particularly in cancer treatment.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Iryna O. Borysenko, Liudmyla K. Sviatenko, Sergiy I. Okovytyy, Jerzy Leszczynski
Summary: The algorithm involves conformational search, transition state and pre-reaction complex structure construction, and activation energy calculation, applicable for investigation of various chemical and biochemical reactions. Using the reaction of bicyclo[2.2.1]hept-5-en-endo-2-ylmethylamine with glycidyl ether as an example, energetically favorable pathways were determined through stochastic conformational search and optimized transition state conformations.
STRUCTURAL CHEMISTRY
(2021)
Article
Energy & Fuels
Atindra Mohan Banerjee, Rajini P. Antony, Mrinal R. Pai, Asheesh Kumar, Arvind K. Tripathi
Summary: In this study, a Pt/Nafion-117 MEA prepared by in-situ impregnation-reduction method was found to be effective for CuCl/HCl electrolysis. Although a current density of approximately 100 mA cm(-2) was achieved at a cell voltage of 1 V, undesired Cu-crossover from anode to cathode side could be noticed during operation in a PEM-type electrolyser with Ar-purged 0.2 M CuCl in approximately 2 M HCl solution as anolyte flowing at approximately 8.8 mLmin(-1).
INTERNATIONAL JOURNAL OF ENERGY RESEARCH
(2021)
Article
Chemistry, Multidisciplinary
Jia Zheng, Dawu Li, Zhongmin Feng, Yun Wang, Ting Sun
Summary: CuHCF is synthesized as a cathode material for aqueous aluminum-ion batteries (AAIBs) through a simple coprecipitation method, with different preintercalation temperatures affecting its electrochemical performances. CuHCF preintercalated at 40 degrees C (CuHCF-P40) shows the highest capacity and best cycling properties. This strategy of improving Prussian blue analogues (PBAs) through preintercalation provides a new idea for further application in AAIBs.
ACS SUSTAINABLE CHEMISTRY & ENGINEERING
(2023)
Review
Biochemistry & Molecular Biology
F. Cornelius, M. Habeck, R. Kanai, C. Toyoshima, S. J. D. Karlish
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2015)
Article
Biochemistry & Molecular Biology
Yimeng Zhao, Haruo Ogawa, Shin-Ichiro Yonekura, Hiroaki Mitsuhashi, Satomi Mitsuhashi, Ichizo Nishino, Chikashi Toyoshima, Shoichi Ishiura
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE
(2015)
Article
Biochemistry & Molecular Biology
Taki Sakai, Yotaro Matsumoto, Minoru Ishikawa, Kazuyuki Sugita, Yuichi Hashimoto, Nobuhiko Wakai, Akio Kitao, Era Morishita, Chikashi Toyoshima, Tomoatsu Hayashi, Tetsu Akiyama
BIOORGANIC & MEDICINAL CHEMISTRY
(2015)
Article
Biochemistry & Molecular Biology
Maho Morita, Haruo Ogawa, Osamu Ohno, Takao Yamori, Kiyotake Suenaga, Chikashi Toyoshima
Article
Biochemistry & Molecular Biology
Shin-Ichiro Yonekura, Chikashi Toyoshima
Article
Physics, Multidisciplinary
Chikashi Toyoshima
Article
Biochemistry & Molecular Biology
Flemming Cornelius, Naoki Tsunekawa, Chikashi Toyoshima
JOURNAL OF BIOLOGICAL CHEMISTRY
(2018)
Article
Multidisciplinary Sciences
Yoshiyuki Norimatsu, Kazuya Hasegawa, Nobutaka Shimizu, Chikashi Toyoshima
Article
Multidisciplinary Sciences
Xingya Xu, Ryuta Kanai, Norihiko Nakazawa, Li Wang, Chikashi Toyoshima, Mitsuhiro Yanagida
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Multidisciplinary Sciences
Naoki Tsunekawa, Haruo Ogawa, Junko Tsueda, Toshihiko Akiba, Chikashi Toyoshima
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Multidisciplinary Sciences
Yoshiki Kabashima, Haruo Ogawa, Rie Nakajima, Chikashi Toyoshima
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2020)
Article
Multidisciplinary Sciences
Ryuta Kanai, Flemming Cornelius, Haruo Ogawa, Kanna Motoyama, Bente Vilsen, Chikashi Toyoshima
Summary: The sodium pump (Na+, K+-ATPase, NKA) is crucial for maintaining ion gradients across cell membranes, with cardiotonic steroids (CTSs) acting as specific inhibitors. Different structural features of CTSs result in diverse inhibitory properties, with crystal structures providing insights into their mechanism of action and potential for isoform specific targeting.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemistry & Molecular Biology
Takaharu Sakuragi, Ryuta Kanai, Akihisa Tsutsumi, Hirotaka Narita, Eriko Onishi, Kohei Nishino, Takuya Miyazaki, Takeshi Baba, Hidetaka Kosako, Atsushi Nakagawa, Masahide Kikkawa, Chikashi Toyoshima, Shigekazu Nagata
Summary: Xkr8-Basigin is a plasma membrane phospholipid scramblase activated by kinases or caspases. The structure revealed key charged residues essential for its scrambling activity, with phosphatidylcholine binding in a hydrophobic cleft on the surface. The tryptophan residue between the head group of phosphatidylcholine and the extracellular end plays a crucial role in regulating the scramblase activity.
NATURE STRUCTURAL & MOLECULAR BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Ryuta Kanai, Flemming Cornelius, Bente Vilsen, Chikashi Toyoshima
Summary: Cryo-electron microscopy was used to study the structure of Na+, K+-ATPase and its variations. The results showed that different reaction states exhibited different biochemical characteristics, and the presence of Mg2+ ions in the transmembrane cation binding sites played a crucial role in the reactions. The binding mechanism of the new-generation cardiotonic steroids (CTSs) did not significantly affect the structure of NKA, and the phospholipid molecules were better resolved in the electron microscopy maps compared to X-ray structures.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Ryuta Kanai, Bente Vilsen, Flemming Cornelius, Chikashi Toyoshima
Summary: Na+,K+-ATPase (NKA) plays a crucial role in establishing electrochemical gradients for Na+ and K+ across the cell membrane. This study presents two crystal structures of NKA in different states, providing insight into its reaction cycle and functional roles. The findings demonstrate how NKA converts between different forms and utilizes the lipid bilayer for gating the ion pathway.