Article
Biochemistry & Molecular Biology
Charles Megier, Katell Peoc'h, Vincent Puy, Anne-Gael Cordier
Summary: Iron and heme metabolism in normal and pathological pregnancies, particularly the impact on placental iron metabolism and the effects of iron deficiency and hemoglobin diseases on the placenta and development, are reviewed in this article.
Article
Multidisciplinary Sciences
Na Li, Peng An, Jifeng Wang, Tingting Zhang, Xiaoqing Qing, Bowen Wu, Lang Sun, Xiang Ding, Lili Niu, Zhensheng Xie, Mengmeng Zhang, Xiaojing Guo, Xiulan Chen, Tanxi Cai, Jianming Luo, Fudi Wang, Fuquan Yang
Summary: This study identified potential diagnostic biomarkers for beta-thalassemia through comparative plasma proteomic profiling and revealed risk factors associated with specific genotypes. Additionally, the abundance of certain proteins may affect the transfusion burden in patients with beta-thalassemia.
Article
Biochemistry & Molecular Biology
Indika Kumarapperuma, Irin P. Tom, Sepalika Bandara, Sherwin Montano, Xiaojing Yang
Summary: Phytochromes are red-light photoreceptors that regulate physiological processes. This study investigates bacteriophytochromes from Rhodopseudomonas palustris and shows that they undergo light-dependent trans-phosphorylation between protomers in both homodimeric and heterodimeric forms.
PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES
(2023)
Review
Hematology
Rui Liu, Xuzhi Zhang, Ling Nie, Shuming Sun, Jing Liu, Huiyong Chen
Summary: Heme oxygenase 1 (HO-1) is the main enzyme responsible for the degradation of heme into iron, carbon monoxide, and biliverdin. It plays a crucial role in regulating iron homeostasis and cell protection. HO-1 is involved in various stages of erythroid development and has implications in red blood cell diseases and stress erythropoiesis.
ANNALS OF HEMATOLOGY
(2023)
Article
Chemistry, Analytical
Qingnan Li, Wenzhi Qiang, Jie Yuan, Lehui Xiao
Summary: The sensitive and accurate detection of biomarkers is crucial in clinical diagnosis and drug discovery. Existing amplification-based methods face challenges of limited reproducibility and high background noise. To solve these problems, a robust plasmonic nanoparticle-coupled single-molecule kinetic fingerprinting (PNP-SMKF) method is developed, allowing ultrasensitive detection of protein kinase A (PKA). This method shows great potential as a versatile platform for enzyme detection and inhibitor screening.
ANALYTICAL CHEMISTRY
(2023)
Article
Biotechnology & Applied Microbiology
Manish Tiwari, Manisha Yadav, Baljinder Singh, Vimal Pandey, Kashif Nawaz, Sabhyata Bhatia
Summary: The critical role of cytokinin in early nodulation in legumes has been confirmed, where exogenous cytokinin application to chickpea roots promotes the formation of pseudo-nodules. Phylogenetic, evolutionary, and expression analysis of two-component system genes revealed highly conserved histidine kinases with diversification in response regulators, particularly TypeB RRs. Furthermore, a gene named CaRR13 was identified to play a crucial regulatory role in early nodulation in chickpea.
PLANT BIOTECHNOLOGY JOURNAL
(2021)
Article
Biotechnology & Applied Microbiology
Guosong Zheng, Panpan Liu, Wenyan He, Hengnuo Tao, Zhen Yang, Chuanwen Sun, Wenfang Wang, Yinhua Lu, Weihong Jiang
Summary: OhkA, an orphan histidine kinase in Streptomyces coelicolor, has been identified as involved in regulating antibiotic biosynthesis and morphological development. In this study, the orphan response regulator OrrA was identified as the cognate RR of OhkA, showing similar phenotypic changes and transcriptomic profiles between the mutants. The direct interaction between OhkA and OrrA was revealed, laying a foundation for further elucidation of the molecular mechanism underlying their regulation.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Himanshu Joshi, Meher K. Prakash
Summary: We performed atomistic calculations on the MCP-CheA-CheW complex from Escherichia coli and found that methylation favors an intermediate structure that is more inclined towards a lower state and increases the chance of ATP hydrolysis. This suggests that the model is sensitive to nutrient signal response, encouraging further studies on the thermodynamic quantification of these effects and the identification of signaling networks.
Review
Biochemistry & Molecular Biology
Eiji Ishii, Yoko Eguchi
Summary: Two-component signal transduction systems are widely conserved in bacteria, serving as candidates for novel drug targets due to their involvement in controlling pathogen physiology. The diverse mechanisms of signal perception and response by HKs have been recently clarified, shedding light on their molecular mechanisms.
Article
Microbiology
Benjamin Vega-Baray, Clelia Domenzain, Sebastian Poggio, Georges Dreyfus, Laura Camarena
Summary: The study found that a protein called Osp inhibits the kinase activity of CckA in Rhodobacter sphaeroides by interacting with the transmitter domain of CckA, forming a negative feedback loop.
Review
Biochemistry & Molecular Biology
Jakub Vavra, Artur Sergunin, Petr Jerabek, Toru Shimizu, Marketa Martinkova
Summary: This minireview discusses the mechanism of signal transduction in two heme-based oxygen sensors: the histidine kinase AfGcHK and the diguanylate cyclase YddV (EcDosC), both of which feature a heme-binding domain containing a globin fold resembling that of hemoglobin and myoglobin.
BIOLOGICAL CHEMISTRY
(2022)
Article
Microbiology
Aileen Krueger, Julia Frunzke
Summary: In this study, laboratory evolution experiment was performed to adapt Corynebacterium glutamicum to increasing heme levels. Results showed that the pseudokinase ChrS plays an important role in high heme tolerance and the paralogous two-component systems have promiscuity in heme-dependent signaling, facilitating fast adaptation to changing environmental conditions.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Microbiology
Erwin C. Stuffle, Mark S. Johnson, Kylie J. Watts
Summary: PAS domains are versatile domains found in proteins across different kingdoms, with a conserved cleft for cofactor or ligand binding. Recent years have seen a significant increase in identified PAS domains and corresponding structures, leading to a better understanding of PAS signaling mechanisms. New bacterial PAS ligands have been discovered, expanding the list of bacterial PAS functions beyond signal sensing to include modulation, transduction, dimerization, protein interaction, and cellular localization.
CURRENT OPINION IN MICROBIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Pritam Mondal, Izumi Ishigami, Emilie F. Gerard, Chaeeun Lim, Syun-Ru Yeh, Sam P. de Visser, Gayan B. Wijeratne
Summary: Heme superoxides are versatile metallo-intermediates in biology, facilitating a wide range of oxidation and oxygenation reactions involving O-2(g). The electronic factors of heme center modulate the feasibility of proton-coupled electron transfer (PCET) processes, influencing both thermodynamic and kinetic parameters. Understanding these electronic effects is pivotal in biological heme systems and alternative energy applications.
Article
Chemistry, Multidisciplinary
Byung-Kuk Yoo, Sergei G. Kruglik, Jean-Christophe Lambry, Isabelle Lamarre, C. S. Raman, Pierre Nioche, Michel Negrerie
Summary: Some bacteria possess protein sensors called H-NOX domain that are similar to the heme domain of mammalian NO-receptor. They can bind nitric oxide (NO) and oxygen (O2). The signaling pathways where these proteins act as NO or O2 sensors are different and only fully established in some species.
Article
Multidisciplinary Sciences
Bo Zhuang, Rivo Ramodiharilafy, Ursula Liebl, Alexey Aleksandrov, Marten H. Vos
Summary: This study revealed the photophysical properties of anionic semireduced flavin radicals and discovered their photoproducts in five different flavoprotein oxidases. It was found that photoexcitation leads to the oxidation of protein-bound anionic flavin radicals on a fast timescale, followed by decay of the generated photoproducts within a narrow time range. The active-site residues were proposed as the electron acceptors based on computational analysis.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biophysics
Sofia M. Kapetanaki, Zsuzsanna Fekete, Pierre Dorlet, Marten H. Vos, Ursula Liebl, Andras Lukacs
Summary: Heme plays a crucial role in the signal transduction mechanism of Rhodobacter sphaeroides, interacting with the transcriptional regulatory complex AppA/PpsR to regulate photosynthesis gene expression. This study utilized electron paramagnetic resonance (EPR) spectroscopy and Forster resonance energy transfer (FRET) to investigate the interactions and effects of heme binding. The findings provide new molecular-level insight into the regulatory role of heme in R. sphaeroides.
BIOPHYSICAL JOURNAL
(2022)
Article
Chemistry, Physical
Bo Zhuang, Ursula Liebl, Marten H. Vos
Summary: Flavins are versatile redox-active cofactors in proteins, and electron transfer between flavins and specific amino acid residues plays a role in many flavoproteins. These reactions potentially have a photoprotective role for oxidized flavoproteins. The study of the early reaction intermediates and the development of flavoprotein-based photocatalysts are important for understanding and optimizing their applications.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Article
Biochemistry & Molecular Biology
Bo Zhuang, Marten H. Vos, Alexey Aleksandrov
Summary: A study investigated the binding properties of halide inhibitors (chloride and fluoride ions) on glucose oxidase (GOX) through spectral characterization and simulations. It was found that chloride and fluoride ions bind differently to the active site of GOX, leading to opposite effects on the excited state and fluorescence decay kinetics. These findings provide insights into the mechanism of halide inhibition on GOX.
Article
Chemistry, Multidisciplinary
Bo Zhuang, Marten H. Vos
Summary: An unprecedented photoswitching phenomenon of flavin-inhibitor complexes in a flavoenzyme was revealed by femtosecond transient absorption spectroscopy. The results showed that the charge transfer interactions in the complex vanish upon excitation and re-form in a thermally activated way after a few nanoseconds.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Review
Biochemistry & Molecular Biology
Kenichi Kitanishi
Summary: Hemerythrin is an oxygen-binding protein found in marine invertebrates, and recent studies have revealed its role as an oxygen and redox sensor in bacteria, regulating cellular physiological processes in response to changes in oxygen concentration and redox status.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Review
Biochemistry & Molecular Biology
Jakub Vavra, Artur Sergunin, Petr Jerabek, Toru Shimizu, Marketa Martinkova
Summary: This minireview discusses the mechanism of signal transduction in two heme-based oxygen sensors: the histidine kinase AfGcHK and the diguanylate cyclase YddV (EcDosC), both of which feature a heme-binding domain containing a globin fold resembling that of hemoglobin and myoglobin.
BIOLOGICAL CHEMISTRY
(2022)
Review
Biochemistry & Molecular Biology
Marten H. Vos, Mayla Salman, Ursula Liebl
Summary: Carbon monoxide has recently been recognized as a signaling molecule, and only a few natural CO sensor proteins have been identified. These include heme-based transcription factors, such as the bacterial sensor proteins CooA and RcoM. This review focuses on the use of light to dissociate heme-ligand bonds in investigating early processes in ligand switching and signaling, with emphasis on the CO-trapping properties of the heme cavity.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Chemistry, Physical
Bo Zhuang, Alexey Aleksandrov, Daisuke Seo, Marten H. Vos
Summary: By using ultrafast spectroscopy, it has been found that in ferredoxin-NADP+ oxidoreductase (FNR) enzymes from different sources, the photoexcited fully reduced flavin cofactor (FADred) exhibits significantly different decay rates, with Bacillus subtilis and Rhodopseudomonas palustris showing unusually fast decays and Chlorobaculum tepidum showing slower decay. This finding provides new insights into the photochemistry of fully reduced flavins and their behavior in proteins.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2023)
Article
Chemistry, Physical
Jakub Vavra, Artur Sergunin, Alzbeta Farna, Tomas Ovad, Toru Shimizu, Marketa Martinkova
Summary: The heme-regulated eIF2 alpha kinase, also known as HRI, detects misfolded proteins and induces cytoprotective response to stress mainly caused by heme-shortage. In this study, the effects of four substrates (ATP, CTP, GTP, and UTP) on HRI kinase activity were evaluated, and a detailed kinetics study of the HRI G202S mutant, associated with cancer development, was performed for the first time. The results showed that GTP had a lower kcat value compared to ATP, but significantly higher than CTP and UTP. Additionally, the kcat value of GTP for G202S was higher than that for wild-type.
Article
Biochemistry & Molecular Biology
Artem V. Diuba, Tatiana V. Vygodina, Natalia V. Azarkina, Alexander M. Arutyunyan, Tewfik Soulimane, Marten H. Vos, Alexander A. Konstantinov
Summary: This study investigates the spectral contributions of hemes a2+ and a32+ in bovine cytochrome c oxidase using two approaches. By reconstructing the heme a2+ spectrum and studying photobleaching, specific results were obtained.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS
(2023)
Article
Biochemistry & Molecular Biology
Jakub Vavra, Artur Sergunin, Petr Pompach, Dariya Savchenko, Jakub Hranicek, Ivana Sloufova, Toru Shimizu, Marketa Martinkova
Summary: The interaction between p53 and heme was thoroughly investigated in this study, focusing on the oxidation, spin, coordination, and ligand state of heme iron. The results showed that p53 oligomeric state and zinc binding ability remained unchanged upon heme binding. The conformational dynamics of p53 were significantly affected by heme, leading to increased flexibility and reduced affinity to a specific DNA sequence. The inhibitory effect of heme on DNA binding was found to be partially reversible. Potential heme binding sites in p53 were discussed in relation to the observed conformational changes and perturbed DNA binding ability.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Tetsundo Furuya, Daisuke Nakane, Kenichi Kitanishi, Natsuki Katsuumi, Arshak Tsaturyan, Igor N. Shcherbakov, Masaki Unno, Takashiro Akitsu
Summary: A novel hybrid protein, CuST@lysozyme, composed of a superoxide dismutase-active Cu(II) complex (CuST) and lysozyme, was prepared. Spectroscopic and electrochemical analyses confirmed the binding of CuST to lysozyme. The crystal structure of CuST@lysozyme revealed the binding of the His15 imidazole group of lysozyme to the Cu(II) center of CuST. The combination of CuST with lysozyme did not decrease the superoxide dismutase activity of CuST. Based on various studies, a proposed O-2(-) disproportionation mechanism catalyzed by CuST@lysozyme was discussed.
SCIENTIFIC REPORTS
(2023)