Article
Biochemistry & Molecular Biology
Dongdong Li, Wendan Chu, Xinlei Sheng, Wenqi Li
Summary: This study used analytical ultracentrifugation to investigate the effects of different detergents on the behavior of membrane protein TmrA. Results suggest that DDM is more suitable for the purification of TmrA, a high DDM concentration yields a more homogeneous protein aggregation state, and supplementing TmrA purified with a low DDM concentration with DDM may serve as a practical and cost-effective strategy for membrane protein purification.
Article
Biology
Jie Tang, Dan Yao, Huizhen Zhou, Mingcheng Wang, Maurycy Daroch
Summary: This study investigated the structure and architecture of two-component systems (TCSs) in 17 thermophilic cyanobacteria and revealed their complex and diverse nature. The results showed a unique composition of TCS genes in these cyanobacteria, which were possibly associated with various functions. Horizontal gene transfer and gene duplication events might have played a role in the evolutionary history of TCS genes in certain genera. These findings highlight the potential of thermophilic cyanobacteria genomes for adapting to environmental fluctuations.
Article
Microbiology
Lingyuan Kong, Mingyang Su, Jiayan Sang, Shanshan Huang, Min Wang, Yongfei Cai, Mingquan Xie, Jun Wu, Shida Wang, Simon J. Foster, Jiaqin Zhang, Aidong Han
Summary: In Streptococcus mutans, the histidine kinase Walk's long C-terminal tail is crucial for its interaction with the response regulator WaIR, and plays a key role in signal transduction, transcriptional regulation, and biofilm formation.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Multidisciplinary Sciences
Hualiang Pi, Andy Weiss, Clare L. Laut, Caroline M. Grunenwald, Hannah K. Lin, Xinjie Yi, Devin L. Stauff, Eric P. Skaar
Summary: HitRS is a two-component system that responds to cell envelope damage in the human pathogen Bacillus anthracis. KrrA, an RNA-binding protein, regulates HitRS function by modulating the stability of the hitRS mRNA. KrrA also binds to over 70 RNAs and affects the expression of over 150 genes involved in multiple processes.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Anirudha Dutta, Mona Batish, Vijay Parashar
Summary: The KdpDE two-component system regulates potassium homeostasis and virulence in various bacterial species. The KdpD histidine kinases (HK) of this system contain a universal stress protein (USP) domain which binds to the second messenger cyclic-di-adenosine monophosphate (c-di-AMP) for regulating transcriptional output. The structural features of the USPSa domain in KdpD HKs suggest it may represent a novel subfamily of the USPs.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Multidisciplinary Sciences
He Wang, Qin Yao, Yanjing Guo, Qian Zhang, Zhongchang Wang, Reto Joerg Strasser, Bernal E. Valverde, Shiguo Chen, Sheng Qiang, Hazem M. Kalaji
Summary: New derivatives of TeA with improved potency were designed and screened using molecular docking, with D6 and D13 showing better affinity and herbicidal efficacy than TeA, making them promising compounds for developing novel PSII herbicides with superior performance.
JOURNAL OF ADVANCED RESEARCH
(2022)
Article
Biotechnology & Applied Microbiology
Benjamin X. Wang, Kyle C. Cady, Gerardo C. Oyarce, Katharina Ribbeck, Michael T. Laub
Summary: Pseudomonas aeruginosa harbors over 60 two-component signaling systems that play a role in pathogenesis, with individual genes controlling multiple virulence traits. Deletion strains lacking histidine kinases were used to confirm functions and uncover new roles in controlling virulence-associated traits, providing insight into the functions of these signaling proteins and offering a resource for future studies.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Environmental Sciences
Danping Cai, Jia Wei, Feiyu Huang, Hai Feng, Tangjian Peng, Jiayou Luo, Fei Yang
Summary: This study investigated the characteristics and detoxification mechanisms of microcystinase towards MC-LR, and found that pure microcystinase shows potential in the bioremediation of MC-polluted environments.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2022)
Article
Multidisciplinary Sciences
Iain C. Clark, Bruk Mensa, Christopher J. Ochs, Nathan W. Schmidt, Marco Mravic, Francisco J. Quintana, William F. DeGrado, Adam R. Abate
Summary: Using a hybrid valve- and droplet-based microfluidic system, a combinatorial DNA library encoding an engineered histidine kinase based on bacterial CpxA was successfully constructed. Surprising results were found, such as the different effects on catalytic activity caused by the combinations of the S helix and TM domain. It was concluded that the intervening HAMP domain passively transmits signals and shapes the signaling response depending on subtle changes in neighboring domains, leading to a richness in functional outputs as HKs vary in response to changing evolutionary pressures.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Microbiology
Yahui Feng, Shaodong Bian, Zhiping Pang, Yiyang Wen, Richard Calderone, Dongmei Li, Dongmei Shi
Summary: This study revealed the crucial roles of the S_Tkc and GAF domains of Candida albicans CHK1 in hyphal invasion and mucosal tissue damage. These domains are likely responsible for initiating cell growth and hyphal formation during the lag phase, maintaining the infectivity of C. albicans in vivo.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Satya Narayan Sahu, Sneha Shriparna Satpathy, Chandana Mohanty, Subrat Kumar Pattanayak
Summary: The function of a protein is closely related to its structural properties, and mutations can impact protein functionality. Boerhavia diffusa contains various bioactive compounds, with Boeravinone J showing the best binding affinity to CDKAP1.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
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.
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)
Article
Immunology
Masanori Isaka, Akira Okamoto, Yutaka Miura, Ichiro Tatsuno, Jun-Ichi Maeyama, Tadao Hasegawa
Summary: Bacteria form biofilms for protection against environmental stress, with biofilm formation in acidified environments regulated by a two-component system. LiaS histidine kinase sensor mediates biofilm production and pilus expression in an acidified environment, while TrxS regulates M protein and directly controls biofilm production during environmental acidification.
INFECTION AND IMMUNITY
(2021)
Review
Biochemistry & Molecular Biology
Ivan Gushchin, Vladimir A. Aleksenko, Philipp Orekhov, Ivan M. Goncharov, Vera V. Nazarenko, Oleg Semenov, Alina Remeeva, Valentin Gordeliy
Summary: The study reviews the mechanisms by which bacteria under anaerobic conditions utilize nitrates and nitrites as electron acceptors, explores the function and structural information of nitrate- and nitrite-sensing histidine kinases (NSHKs), and identifies a large diversity of NSHK sequences mostly from different bacterial groups.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Marko Anderluh, Francesco Berti, Anna Bzducha-Wrobel, Fabrizio Chiodo, Cinzia Colombo, Federica Compostella, Katarzyna Durlik, Xhenti Ferhati, Rikard Holmdahl, Dragana Jovanovic, Wieslaw Kaca, Luigi Lay, Milena Marinovic-Cincovic, Marco Marradi, Musa Ozil, Laura Polito, Jose Juan Reina, Celso A. Reis, Robert Sackstein, Alba Silipo, Urban Svajger, Ondrej Vanek, Fumiichiro Yamamoto, Barbara Richichi, Sandra J. van Vliet
Summary: Vaccination is a major achievement in preventing infectious diseases, but challenges remain for pathogens with highly variable antigens and in inducing T-cell immunity in cancer. The recent outbreak also highlights the importance of designing smart therapeutic vaccines.
Article
Biochemistry & Molecular Biology
Juan Luis Pacheco-Garcia, Dmitry Loginov, Bruno Rizzuti, Pavla Vankova, Jose L. Neira, Daniel Kavan, Noel Mesa-Torres, Rita Guzzi, Petr Man, Angel L. Pey
Summary: The phosphomimetic mutation S82D in hNQO1 causes a decrease in flavin-adenine dinucleotide-binding affinity and intracellular stability, while the neutral mutation R80H nearby can alter the functional effects of S82 phosphorylation through electrostatic interactions. The reverse mutation H80R prevents the effects of S82D phosphorylation on hNQO1 by modulating the local stability. Apparently neutral and evolutionarily divergent mutations may determine how mammalian orthologues respond to phosphorylation.
Review
Chemistry, Multidisciplinary
MARKeTA Martinkova
Summary: The paper reviews the main characteristics of heme-containing sensor proteins, which play important roles in regulating key pathways for health.
Article
Biotechnology & Applied Microbiology
Kim Remans, Mario Lebendiker, Celeste Abreu, Mariano Maffei, Shaila Sellathurai, Marina M. May, Ondrej Vanek, Ario de Marco
Summary: This article discusses the importance of the quality control and specific considerations in the production and evaluation of recombinant proteins. It provides examples and strategies for researchers to obtain high-quality samples of proteins with specific requirements.
MICROBIAL CELL FACTORIES
(2022)
Article
Multidisciplinary Sciences
Moshe Giladi, Michal Lisnyansky Bar-El, Pavla Vankova, Alisa Ferofontov, Emelia Melvin, Suha Alkaderi, Daniel Kavan, Boris Redko, Elvira Haimov, Reuven Wiener, Petr Man, Yoni Haitin
Summary: Isoprenoids are synthesized by the prenyltransferase superfamily, and the correlation between active site volume and product length is not observed in long-chain products and rubber synthases. In the human cis-prenyltransferase complex, elongating products exit through an outlet, and product elongation is closely correlated with membrane association.
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
Biology
Emelia Melvin, Zuzana Kalaninova, Elia Shlush, Petr Man, Moshe Giladi, Yoni Haitin
Summary: This passage discusses the innate tetrameric organization of the Tweety homolog (TTYH) family at the cell membrane. Research shows that mTTYH1 and mTTYH3 form tetramers at the plasma membrane, stabilized by interactions between their extracellular domains. Detergent solubilization leads to tetramer destabilization and dissolution into dimers.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Juan Luis Pacheco-Garcia, Ernesto Anoz-Carbonell, Dmitry S. Loginov, Daniel Kavan, Eduardo Salido, Petr Man, Milagros Medina, Angel L. Pey
Summary: Our knowledge on the genetic diversity of the human genome is increasing rapidly, but determining genotype-phenotype correlations requires a combination of experimental and computational work. Mutations in the disease-associated NQO1 protein can have unexpected functional effects, and even mutations predicted to be highly deleterious may have varied impacts on protein function. Current predictive tools and models struggle to explain these effects, reinforcing the idea that naturally occurring mutations can be highly damaging. Using a combination of biophysics and structural biology tools can improve our understanding of genotype-phenotype correlations and improve computational tools for predicting disease-prone variants.
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
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)
Meeting Abstract
Biochemistry & Molecular Biology
O. Skorepa, S. Pazicky, B. Kalouskova, J. Blaha, C. Abreu, J. Dohnalek, T. Skalova, O. Vanek
Meeting Abstract
Biochemistry & Molecular Biology
C. Abreu, T. Skalova, J. Stransky, O. Vanek
Meeting Abstract
Biochemistry & Molecular Biology
Daniela Burska, Lukas Stiburek, Jana Krizova, Marie Vanisova, Vaclav Martinek, Tomas Honzik, Jiri Zeman, Hana Hansikova, Marketa Tesarova
EUROPEAN JOURNAL OF HUMAN GENETICS
(2022)