Article
Multidisciplinary Sciences
Luke E. Formosa, Shadi Maghool, Alice J. Sharpe, Boris Reljic, Linden Muellner-Wong, David A. Stroud, Michael T. Ryan, Megan J. Maher
Summary: COA7 is a crucial assembly factor for the biogenesis of mitochondrial complex IV. It interacts with SCO1 and SCO2 to catalyze copper relay and reduction of disulfide bonds, which are important for complex IV assembly.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Rene F. F. Gorriz, Senta Volkenandt, Petra Imhof
Summary: Cytochrome c Oxidase (CcO) is a membrane protein that uses the energy of oxygen reduction to water to pump protons against an electrochemical gradient. Two distinct channels, D-channel and K-channel, transport the required protons for this reaction and pumped protons in a step-wise and regulated manner. By conducting molecular dynamics simulations, the effect of protonation on these channels was analyzed. The protonation state of the channels affects the hydration level and proton transfer ability, but there is no significant direct effect between the protonation states of the two channels. The regulation of proton uptake and passage in the channels must be achieved through other means of communication, such as the location of the reducing electron.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Rene F. Gorriz, Petra Imhof
Summary: Cytochrome c oxidase is a membrane protein that plays a crucial role in proton transport and oxidation reaction. Our molecular dynamics simulations reveal that the position of protons affects the number of water molecules in the channel. Higher hydration levels facilitate proton transfer. The bottom of the channel, E101, has minimal impact on proton transfer, but H96 acts as the initial proton acceptor.
Article
Biochemistry & Molecular Biology
Kazumasa Muramoto, Kyoko Shinzawa-Itoh
Summary: The crystal structure of bovine cytochrome c oxidase (CcO) reveals the presence of a bound sodium ion (Na+), while the addition of calcium ions (Ca2+) causes spectral changes and inhibition of enzymatic activity. The crystal structure of Ca2+-bound bovine CcO in both the oxidized and reduced states was determined, showing different coordination geometries compared to Na+. The binding of Ca2+ does not significantly affect enzymatic function, but rather induces redox-coupled structural changes. The relationship between Ca2+ binding and inhibitory effect, as well as the potential role of Ca2+, are discussed.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS
(2023)
Article
Multidisciplinary Sciences
Elesha R. Hoffarth, Kersti Caddell Haatveit, Eugene Kuatsjah, Gregory A. MacNeil, Simran Saroya, Charles J. Walsby, Lindsay D. Eltis, K. N. Houk, Marc Garcia-Borras, Katherine S. Ryan
Summary: Recent study uncovers a mechanism by which the organic cofactor PLP activates molecular oxygen for oxidation reactions, particularly in the desaturation or hydroxylation of arginine. The proposed mechanism suggests the precise positioning of a water molecule in the active site plays a crucial role in controlling the final reaction outcome. This mechanism provides a unified framework to understand the activation of oxygen by PLP-dependent enzymes and elucidates a shared mechanistic pathway and intertwined evolutionary history for arginine desaturases and hydroxylases.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Cell Biology
Jia Shi, Yi Yang, Ya-Nan Wang, Qing Li, Xue Xing, An-Ying Cheng, Xiao-Na Zhan, Jie Li, Gang Xu, Fan He
Summary: This study reveals the association between metabolism and the progression of vascular calcification in chronic kidney disease (CKD). High phosphate and uremic serum enhance mitochondrial respiration capacity in vascular smooth muscle cells (VSMCs), while glycolysis level remains unchanged. Suppression of cytochrome c oxidase (COX) activity attenuates vascular calcification.
CELL DEATH & DISEASE
(2022)
Article
Chemistry, Multidisciplinary
Guoliang Zhu, Hui Zeng, Shuangbo Zhang, Jana Juli, Linhua Tai, Danyang Zhang, Xiaoyun Pang, Yan Zhang, Sin Man Lam, Yun Zhu, Guohong Peng, Hartmut Michel, Fei Sun
Summary: The study elucidated the structure of a hyperthermophilic bacterium cytochrome c oxidase, revealing a unique dimeric structure essential for naphthoquinol binding. This suggests an evolutionary adaptation of the oxidase to its hyperthermophilic environment, shedding light on the structural variation of cytochrome c oxidases in different species.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Multidisciplinary Sciences
Gizem Inak, Agnieszka Rybak-Wolf, Pawel Lisowski, Tancredi M. Pentimalli, Rene Juettner, Petar Glazar, Karan Uppal, Emanuela Bottani, Dario Brunetti, Christopher Secker, Annika Zink, David Meierhofer, Marie-Therese Henke, Monishita Dey, Ummi Ciptasari, Barbara Mlody, Tobias Hahn, Maria Berruezo-Llacuna, Nikos Karaiskos, Michela Di Virgilio, Johannes A. Mayr, Saskia B. Wortmann, Josef Priller, Michael Gotthardt, Dean P. Jones, Ertan Mayatepek, Werner Stenzel, Sebastian Diecke, Ralf Kuehn, Erich E. Wanker, Nikolaus Rajewsky, Markus Schuelke, Alessandro Prigione
Summary: Leigh syndrome (LS) is a severe neurometabolic disorder lacking effective models. This study found that LS carrying mutations in SURF1 gene exhibit impaired neuronal morphogenesis due to metabolic deficiencies.
NATURE COMMUNICATIONS
(2021)
Article
Biology
Olivier Cochet-Escartin, Mete Demircigil, Satomi Hirose, Blandine Allais, Philippe Gonzalo, Ivan Mikaelian, Kenichi Funamoto, Christophe Anjard, Vincent Calvez, Jean-Paul Rieu
Summary: Using a self-generated hypoxic assay, researchers demonstrated that Dictyostelium discoideum exhibits collective aerotactic behavior under low oxygen concentrations. Through experimentation and modeling, it was found that the migration of a dense ring of cells can be explained by the interplay between cell division and aerotaxis modulation.
Article
Chemistry, Multidisciplinary
Hiroshi Nakagawa, Taro Tamada
Summary: Protein hydration is crucial for stability and molecular recognition, with hydrophilic residues being more hydrated than hydrophobic ones. Increasing water content leads to uniform hydration of all residues in the protein, with the number of hydrogen bonds per water molecule approaching 4. The hydrogen bond structure of hydration water in protein crystals remains similar to the tetrahedral structure of bulk water across different hydration levels.
FRONTIERS IN CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Thorsten Friedrich, Daniel Wohlwend, Vitaliy B. Borisov
Summary: Cytochrome bd is a terminal oxidase in the membrane respiratory chains of prokaryotes that is unique in its ability to generate a proton motive force without pumping protons. It plays a crucial role not only in energy conservation but also in the response to environmental stressors in microbial cells. As a molecular drug target candidate, cytochrome bd promotes virulence in pathogenic species.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Jack V. Greiner, Thomas Glonek
Summary: Protein aggregation is the cause of several eye diseases, and ATP plays a crucial role in maintaining protein solubility and organismal function, preventing pathological protein aggregation and ensuring normal cellular, tissue, and organismal function.
Article
Multidisciplinary Sciences
Michael B. Powner, Glen Jeffery
Summary: Systemic glucose levels can be modulated through specific solar wavelengths that affect mitochondrial metabolism. Different wavelengths of light have opposing effects on mitochondrial respiration, with longer wavelengths increasing ATP production and shorter wavelengths suppressing metabolism. This study in a bumblebee model found that manipulating mitochondrial activity with specific wavelengths of light significantly altered circulating glucose concentration. This research contributes to our understanding of how light can affect systemic metabolism.
Article
Biochemistry & Molecular Biology
Martina R. Nastasi, Vitaliy B. Borisov, Elena Forte
Summary: Carbon monoxide (CO) has a complex physiological role in organisms, acting as both a poison and a signaling molecule. In E. coli cells, the bd-I enzyme is more resistant to CO inhibition compared to bd-II and bo3. This finding suggests that bd-I may play a crucial role in bacterial defense against stresses.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Kyoko Fujita, Hiroyuki Ohno
Summary: Hydrated ionic liquid is a mixture of ionic liquid and water, which allows for the design of unique aqueous electrolyte solutions. The properties of hydrated ionic liquids, such as polarity, viscosity, ion mobility, and hydrogen bonding ability, can be controlled by adjusting the water content. This mixture provides a similar environment to that of living cells and has potential as effective solvents for biomolecules. In this account, we summarize the basic properties, recent results, and future aspects of hydrated ionic liquids.
