Article
Biochemistry & Molecular Biology
Ritesh R. Sevalkar, Joel N. Glasgow, Martin Pettinati, Marcelo A. Marti, Vineel P. Reddy, Swati Basu, Elmira Alipour, Daniel B. Kim-Shapiro, Dario A. Estrin, Jack R. Lancaster, Adrie J. C. Steyn
Summary: This study reveals that Mycobacterium tuberculosis can sense and respond to hydrogen sulfide (H2S) signal via the DosS/T/R system. The binding of H2S to DosS heme iron increases DosS autokinase activity and subsequent phosphorylation of DosR, leading to the modulation of gene expression. These findings demonstrate a novel mechanism for Mtb to sense and respond to H2S and highlight the remarkable plasticity of DosS.
Article
Biology
Abhisek Dwivedy, Anam Ashraf, Bhavya Jha, Deepak Kumar, Nisheeth Agarwal, Bichitra K. Biswal
Summary: Intracellular pathogens such as Mycobacterium tuberculosis have developed strategies to evade host immune responses and meet their nutritional requirements, even in the presence of immune pressure. Host cells can up-regulate histidine catabolizing enzymes to starve the pathogen of essential amino acids, but the pathogen can overcome this by de novo synthesis. This study sheds light on the importance of histidine biosynthesis for the pathogenesis of Mtb and reveals a potential link between histidine metabolism and Mtb infection.
COMMUNICATIONS BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Miljan Stupar, Juanelle Furness, Christopher J. De Voss, Lendl Tan, Nicholas P. West
Summary: This review describes the role of two-component systems in bacterial pathogenesis, with a focus on the role of sensor kinases of Mycobacterium tuberculosis. These proteins enable pathogenic mycobacteria to monitor their environment, sense and respond to signals, and adapt to their intracellular lifestyle.
MOLECULAR MICROBIOLOGY
(2022)
Review
Chemistry, Medicinal
Milan Urban, Veronika Slachtova, Lucie Brulikova
Summary: Mycobacterial energy metabolism, particularly the oxidative phosphorylation pathway, has become increasingly important as a molecular target for the development of new anti-TB drugs. Small organic molecules targeting this pathway have shown promising activity against latent and resistant TB strains, with FDA-approved inhibitors confirming the value of targeting mycobacterial energy metabolism.
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY
(2021)
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)
Article
Chemistry, Medicinal
Hamish S. S. Sutherland, Guo-Liang Lu, Amy S. T. G. Tong, Daniel M. Conole, Scott G. U. Franzblau, Anna B. Upton, Manisha U. D. Lotlikar, Christopher B. J. Cooper, Brian D. A. Palmer, Peter J. Choi, William A. Denny
Summary: This study reports tetrahydronaphthalene amides (THNAs) as a new class of ATP synthase inhibitors that effectively inhibit the growth of Mycobacterium tuberculosis (M.tb). The design, synthesis, and structure-activity relationship studies of THNA analogues were conducted, and several compounds with potent in vitro M.tb growth inhibition were identified. Pharmacokinetic and off-target profiling studies were also performed to evaluate the potential of these THNAs as therapeutic options for TB.
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Microbiology
Raphael Gries, Michael Dal Molin, Jason Chhen, Edeltraud van Gumpel, Viola Dreyer, Stefan Niemann, Jan Rybniker
Summary: Drug-resistant tuberculosis is a global health care threat that requires new and effective treatment options. Two novel cytochrome bc(1) inhibitors (MJ-22 and B6) have been identified as effective in targeting the Mycobacterium tuberculosis respiratory chain in human macrophages. These compounds have shown low mutation frequencies and unique cross-resistance patterns compared to other advanced cytochrome bc(1) inhibitors.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2023)
Article
Microbiology
Uchenna Watson Waturuocha, M. S. Krishna, Vandana Malhotra, Narendra M. Dixit, Deepak Kumar Saini
Summary: This study investigates the impact of a specific polymorphism in PhoR of Mycobacterium tuberculosis, revealing that the mutation causes a survival disadvantage in host cells, explaining the low prevalence of the SNP in clinical strains. It highlights the importance of considering such SNPs in testing therapeutic and co-therapeutic methods to combat tuberculosis.
FRONTIERS IN MICROBIOLOGY
(2021)
Review
Cell Biology
Zilu Wang, Jianping Xie
Summary: Phosphorylation plays a crucial role in tuberculosis research by revealing the interaction between the pathogen and the host, leading to the development of new measures for prevention and treatment.
CELLULAR SIGNALLING
(2022)
Article
Biochemistry & Molecular Biology
Deepak Kumar, Bhavya Jha, Indu Bhatia, Anam Ashraf, Abhisek Dwivedy, Bichitra Kumar Biswal
Summary: The study demonstrates that the small molecule DLA shows strong inhibitory effects against Mtb IGPD and bactericidal activity against Mtb and Mycobacterium smegmatis, making it a promising lead compound for further drug development.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
(2022)
Article
Biochemistry & Molecular Biology
Vasantharaja Raguraman, Leena Chauhan, Priyanka Gehlot, Bhani Kongkham, P. Hariprasad
Summary: In this study, 150 plant secondary metabolites (PSMs) with the lowest binding energy were identified through molecular docking. These PSMs belong to chemical classes such as tannins, flavonoid glycosides, terpene glycosides, steroid lactones, etc. Bismahanine, Ashwagandhanolide, and Daurisoline formed stable complexes with IGPD and showed strong H-bond interactions with specific amino acid residues. These PSMs could be potential leads against IGPD and should be further investigated in vitro and in vivo.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Biochemistry & Molecular Biology
Juan Cruz Almada, Ana Bortolotti, Jean Marie Ruysschaert, Diego de Mendoza, Maria Eugenia Inda, Larisa Estefania Cybulski
Summary: DesK, a Histidine Kinase in Bacillus subtilis, plays a crucial role in maintaining lipid homeostasis in response to environmental changes. The interactions between transmembrane helices of DesK are essential for signal transmission, with specific hydrogen-bonding residues identified as key players.
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.
Article
Biochemical Research Methods
Rachel J. Beltman, Andrew A. Herppich, Hannah J. Bremer, Mary Kay H. Pflum
Summary: Phosphorylation of proteins by kinase enzymes plays a crucial role in cell signaling and disease development. Identifying the interactions between kinases and their phosphorylated substrates is important for understanding cellular events and developing kinase-targeting drugs. In this study, we introduce two ATP analogues, ATP-AFS and ATP-HexBr, which can crosslink kinase-substrate pairs without the need for UV irradiation. Both ATP-AFS and ATP-HexBr showed efficient crosslinking, with ATP-AFS demonstrating more robust complexes. Importantly, ATP-AFS can promote crosslinking in complex cellular mixtures, allowing for future applications in kinase-substrate identification.
BIOCONJUGATE CHEMISTRY
(2023)
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
S. -C. Song, Y. -M. An, J. -H. Shin, M-J. Chung, J. -G. Seo, E. Kim
BENEFICIAL MICROBES
(2017)
Article
Medicine, Research & Experimental
Si-Yoon Han, Yun-Jeong Jeong, Yongsoo Choi, Soon-Kyung Hwang, Young-Seuk Bae, Young-Chae Chang
INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE
(2018)
Article
Biochemistry & Molecular Biology
Jeong-Woo Park, Jin Joo Kim, Young-Seuk Bae
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2018)
Article
Nutrition & Dietetics
Yoomin Ahn, Myung Hee Nam, Eungbin Kim
Article
Biotechnology & Applied Microbiology
Ha Ju Park, Yung Mi Lee, Hackwon Do, Jun Hyuck Lee, Eungbin Kim, Hyoungseok Lee, Dockyu Kim
Summary: In cold environments, bacteria with potential for degrading HA were isolated and classified into different genera, most of which degraded HA at lower temperatures. Additionally, the study explored the degradation mechanism of these bacteria through the LMCO gene.
FOLIA MICROBIOLOGICA
(2021)
Article
Biochemistry & Molecular Biology
Junbin Song, Young-Seuk Bae
Summary: The study demonstrates that CK2 down-regulation induces the expression of SASP factors through NF-kappa B activation, which is mediated by the activation of the SIRT1-AKT-IKK axis and RelA/p65 acetylation. The suppression of four miRNAs can be used as anti-inflammatory agents to inhibit CK2 down-regulation and the expression of SASP genes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Microbiology
Dockyu Kim, Namyi Chae, Mincheol Kim, Sungjin Nam, Eungbin Kim, Hyoungseok Lee
JOURNAL OF MICROBIOLOGY
(2020)
Article
Microbiology
Dockyu Kim, Ha Ju Park, Mincheol Kim, Seulah Lee, Soon Gyu Hong, Eungbin Kim, Hyoungseok Lee
Summary: In the maritime Antarctic tundra, long-term warming or prolonged thawing periods can impact the relative abundance of cold-adapted bacterial communities, thereby promoting the rate of microbial decomposition of heteropolymer humic substances.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Yoonsung Lee, Young-Seuk Bae
Summary: This study demonstrates that the KCNQ1OT1-miR-760-CK2α pathway plays essential roles in senescence and calorie restriction (CR), suggesting KCNQ1OT1 as a novel therapeutic target for anti-aging and CR treatment.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Jeong-Woo Park, Jihyeon Jeong, Young-Seuk Bae
Summary: Calorie restriction (CR) and autophagy activation have been found to extend the healthspan of organisms by delaying age-related diseases. This study investigated the role of protein kinase CK2 in CR and autophagy and found that CK2's expression was upregulated by CR, leading to the activation of SIRT1 and AMP-activated protein kinase (AMPK). Overexpression of CK2 alpha stimulated autophagy initiation and nucleation markers, and several molecules including SIRT1, AKT, mTOR, AMPK, and FoxO3a were involved in CK2-mediated autophagy. The findings suggest that inhibiting certain microRNAs or using their antisense inhibitors could mimic the effects of CR or induce autophagy.
MOLECULES AND CELLS
(2022)
Article
Biochemistry & Molecular Biology
Jeong-Woo Park, Young-Seuk Bae
Summary: This study investigated the roles of histone lysine demethylases JMJD2a and LSD1 in CK2 downregulation-mediated senescence. The results showed that CK2 downregulation reduced the expression of JMJD2a and LSD1 by activating mTOR, resulting in H3K9me3 induction. This study suggests that CK2 is a potential therapeutic target for age-related diseases.
Article
Biochemistry & Molecular Biology
Hye-Jun Ham, Jeong-Woo Park, Young-Seuk Bae
Review
Biotechnology & Applied Microbiology
Dockyu Kim, Ki Young Choi, Miyoun Yoo, Gerben J. Zylstra, Eungbin Kim
JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY
(2018)
Article
Biochemistry & Molecular Biology
Jeong-Woo Park, Young-Hoon Lee, Young-Seuk Bae
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2017)
Article
Biotechnology & Applied Microbiology
Eunsol Ahn, Ki Young Choi, Beom Sik Kang, Gerben J. Zylstra, Dockyu Kim, Eungbin Kim
ANNALS OF MICROBIOLOGY
(2017)