{"title":"Glu592 of the axon guidance receptor ROBO3 mediates a pH-dependent interaction with NELL2 ligand","authors":"Kimihiko Mizutani, Mayuko Toyoda, Teruyo Ojima-Kato, Andrés D. Maturana, Tomoaki Niimi","doi":"10.1002/1873-3468.15054","DOIUrl":"10.1002/1873-3468.15054","url":null,"abstract":"<p>There are only a few studies on the function of neuronal axon guidance molecules during low brain pH conditions. We previously reported that roundabout (ROBO) 2, a receptor for the axon guidance molecule SLIT, can bind to the neural epidermal growth factor-like-like (NELL) ligands in acidic conditions by conformational change of its ectodomain. Here, we show that the ROBO3 receptor also exhibits a pH-dependent increase in binding to the NELL2 ligand. We found that the Glu592 residue of ROBO3 at the binding interface between NELL2 and ROBO3 is a pH sensor and that the formation of a new hydrogen bonding network, due to protonation of the Glu592, leads to increased binding in acidic conditions. These results suggest that NELL2–ROBO3 signaling could be regulated by extracellular pH.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 4","pages":"571-580"},"PeriodicalIF":3.5,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15054","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142617503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-11-07DOI: 10.1002/1873-3468.15046
Steven Lawrence, Jialiang Lin, Asma Khurshid, Wahyu Utami, Richa Singhania, Sadaf Ashraf, Graeme J. Thorn, Irengbam Rocky Mangangcha, Keith Spriggs, Dong-Hyun Kim, David Barrett, Cornelia H. de Moor
{"title":"Cordycepin generally inhibits growth factor signal transduction in a systems pharmacology study","authors":"Steven Lawrence, Jialiang Lin, Asma Khurshid, Wahyu Utami, Richa Singhania, Sadaf Ashraf, Graeme J. Thorn, Irengbam Rocky Mangangcha, Keith Spriggs, Dong-Hyun Kim, David Barrett, Cornelia H. de Moor","doi":"10.1002/1873-3468.15046","DOIUrl":"10.1002/1873-3468.15046","url":null,"abstract":"<p>Cordycepin (3′ deoxyadenosine) has been widely researched as a potential cancer therapy, but many diverse mechanisms of action have been proposed. Here, we confirm that cordycepin triphosphate is likely to be the active metabolite of cordycepin and that it consistently represses growth factor-induced gene expression. Bioinformatic analysis, quantitative PCR and western blotting confirmed that cordycepin blocks the PI3K/AKT/mTOR and/or MEK/ERK pathways in six cell lines and that AMPK activation is not required. The effects of cordycepin on translation through mTOR pathway repression were detectable within 30 min, indicating a rapid process. These data therefore indicate that cordycepin has a universal mechanism of action, acting as cordycepin triphosphate on an as yet unknown target molecule involved in growth factor signalling.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 3","pages":"415-435"},"PeriodicalIF":3.5,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15046","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142590413","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-11-07DOI: 10.1002/1873-3468.15051
Sarika Tilwani, Karan Gandhi, Sorab N. Dalal
{"title":"14-3-3ε conditional knockout mice exhibit defects in the development of the epidermis","authors":"Sarika Tilwani, Karan Gandhi, Sorab N. Dalal","doi":"10.1002/1873-3468.15051","DOIUrl":"10.1002/1873-3468.15051","url":null,"abstract":"<p>The epidermis is a stratified epithelium that functions as the first line of defense against pathogenic invasion and acts as a barrier preventing water loss. In this study, we aimed to decipher the role of 14-3-3ε in the development of the epidermis. We report that loss of 14-3-3ε in the epidermis of juvenile and adult mice reduces cell division in the basal layer and increases the percentage of cells with multiple centrosomes, leading to a reduction in the thickness of the basal and stratified layers. We also demonstrate a decrease in the expression of differentiation markers, although no gross morphological defects in the skin or adverse effects on the survival of the mice were observed. These results suggest that loss of 14-3-3ε in the epidermis may lead to defects in proliferation and differentiation.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 24","pages":"3005-3020"},"PeriodicalIF":3.5,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11666074/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142603807","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-11-07DOI: 10.1002/1873-3468.15048
Nicholas L. Yan, Francisco Candido, Eric Tse, Arthur A. Melo, Stanley B. Prusiner, Daniel A. Mordes, Daniel R. Southworth, Nick A. Paras, Gregory E. Merz
{"title":"Cryo-EM structure of a novel α-synuclein filament subtype from multiple system atrophy","authors":"Nicholas L. Yan, Francisco Candido, Eric Tse, Arthur A. Melo, Stanley B. Prusiner, Daniel A. Mordes, Daniel R. Southworth, Nick A. Paras, Gregory E. Merz","doi":"10.1002/1873-3468.15048","DOIUrl":"10.1002/1873-3468.15048","url":null,"abstract":"<p>Multiple system atrophy (MSA) is a progressive neurodegenerative disease characterized by accumulation of α-synuclein cross-β amyloid filaments in the brain. Previous structural studies of these filaments by cryo-electron microscopy (cryo-EM) revealed three discrete folds distinct from α-synuclein filaments associated with other neurodegenerative diseases. Here, we use cryo-EM to identify a novel, low-populated MSA filament subtype (designated Type I<sub>2</sub>) in addition to a predominant class comprising MSA Type II<sub>2</sub> filaments. The 3.3-Å resolution structure of the Type I<sub>2</sub> filament reveals a fold consisting of two asymmetric protofilaments, one of which adopts a novel structure that is chimeric between two previously reported protofilaments. These results further define MSA-specific folds of α-synuclein filaments and have implications for designing MSA diagnostics and therapeutics.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 1","pages":"33-40"},"PeriodicalIF":3.5,"publicationDate":"2024-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11726156/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142603815","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Cryo-EM structures of the zinc transporters ZnT3 and ZnT4 provide insights into their transport mechanisms","authors":"Hanako Ishida, Riri Yo, Zhikuan Zhang, Toshiyuki Shimizu, Umeharu Ohto","doi":"10.1002/1873-3468.15047","DOIUrl":"10.1002/1873-3468.15047","url":null,"abstract":"<p>Zinc transporters (ZnTs) act as H<sup>+</sup>/Zn<sup>2+</sup> antiporters, crucial for zinc homeostasis. Brain-specific ZnT3 expressed in synaptic vesicles transports Zn<sup>2+</sup> from the cytosol into vesicles and is essential for neurotransmission, with ZnT3 dysfunction associated with neurological disorders. Ubiquitously expressed ZnT4 localized to lysosomes facilitates the Zn<sup>2+</sup> efflux from the cytosol to lysosomes, mitigating the cell injury risk. Despite their importance, the structures and Zn<sup>2+</sup> transport mechanisms remain unclear. We characterized the three-dimensional structures of human ZnT3 (inward-facing) and ZnT4 (outward-facing) using cryo-electron microscopy. By combining these structures, we assessed the conformational changes that could occur within the transmembrane domain during Zn<sup>2+</sup> transport. Our results provide a structural basis for a more comprehensive understanding of the H<sup>+</sup>/Zn<sup>2+</sup> exchange mechanisms exhibited by ZnTs.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 1","pages":"41-52"},"PeriodicalIF":3.5,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11726163/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142544628","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-10-27DOI: 10.1002/1873-3468.15040
Jigneshkumar A. Mochi, Jaykumar Jani, Smit Shah, Anju Pappachan
{"title":"Leishmania donovani adenylosuccinate synthetase requires IMP for dimerization and organization of the active site","authors":"Jigneshkumar A. Mochi, Jaykumar Jani, Smit Shah, Anju Pappachan","doi":"10.1002/1873-3468.15040","DOIUrl":"10.1002/1873-3468.15040","url":null,"abstract":"<p>Adenylosuccinate synthetase (AdSS), which catalyses the GTP-dependent conversion of inosine monophosphate (IMP) and aspartic acid to succinyl-AMP, plays a major role in purine biosynthesis. In some bacterial AdSS, it is implicated that IMP binding is important to organize the active site, but in certain plant AdSS, GTP performs this role. Here, we report that in <i>Leishmania donovani</i> AdSS, IMP binding favoured dimerization, induced greater conformational change and improved the protein stability more than GTP binding. IMP binding, which resulted in a network of hydrogen bonds, stabilized the conformation of active site loops and brought the switch loop to a closed conformation, which then facilitated GTP binding. Our results provide a basis for designing better inhibitors of leishmanial AdSS.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 3","pages":"381-399"},"PeriodicalIF":3.5,"publicationDate":"2024-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497593","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-10-27DOI: 10.1002/1873-3468.15036
Anqi Dong, Masao Yoshizumi, Hiroki Kokubo
{"title":"Odz4 upregulates SAN-specific genes to promote differentiation into cardiac pacemaker-like cells","authors":"Anqi Dong, Masao Yoshizumi, Hiroki Kokubo","doi":"10.1002/1873-3468.15036","DOIUrl":"10.1002/1873-3468.15036","url":null,"abstract":"<p>Cardiac arrhythmias stemming from abnormal sinoatrial node (SAN) function can lead to sudden death. Developing a biological pacemaker device for treating sick sinus syndrome (SSS) could offer a potential cure. Understanding SAN differentiation is crucial, yet its regulatory mechanism remains unclear. We reanalyzed published RNA-seq data and identified <i>Odz4</i> as a SAN-specific candidate. <i>In situ</i> hybridization revealed <i>Odz4</i> expression in the cardiac crescent and throughout the cardiac conduction system (CCS). To assess the role of <i>Odz4</i> in CCS differentiation, we utilized a Tet-Off inducible system for its intracellular domain (ICD). Embryonic bodies (EBs) exogenously expressing <i>Odz4</i>-<i>ICD</i> exhibited an increased propensity to develop into pacemaker-like cells with enhanced automaticity and upregulated expression of SAN-specific genes. CellChat and GO analyses unveiled SAN-specific enrichment of ligand–receptor sets, especially Ptn-Ncl, and extracellular matrix components in the group exogenously expressing <i>Odz4-ICD</i>. Our findings underscore the significance of <i>Odz4</i> in SAN development and offer fresh insights into biological pacemaker establishment.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 3","pages":"299-315"},"PeriodicalIF":3.5,"publicationDate":"2024-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15036","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497669","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-10-24DOI: 10.1002/1873-3468.15045
Barnava Banerjee, Chinmay K. Kamale, Abhishek B. Suryawanshi, Subrata Dasgupta, Santosh Noronha, Prasenjit Bhaumik
{"title":"Crystal structures of Aspergillus oryzae exo-β-(1,3)-glucanase reveal insights into oligosaccharide binding, recognition, and hydrolysis","authors":"Barnava Banerjee, Chinmay K. Kamale, Abhishek B. Suryawanshi, Subrata Dasgupta, Santosh Noronha, Prasenjit Bhaumik","doi":"10.1002/1873-3468.15045","DOIUrl":"10.1002/1873-3468.15045","url":null,"abstract":"<p>Exo-β-(1,3)-glucanases are promising enzymes for use in the biofuel industry as they hydrolyse sugars such as laminarin, a major constituent of the algal cell wall. This study reports structural and biochemical characterizations of <i>Aspergillus oryzae</i> exo-β-(1,3)-glucanase (AoBgl) belonging to the GH5 family. Purified AoBgl hydrolyses β-(1,3)-glycosidic linkages of the oligosaccharide laminaritriose and the polysaccharide laminarin effectively. We have determined three high-resolution structures of AoBgl: (a) the apo form at 1.75 Å, (b) the complexed form with bound cellobiose at 1.73 Å and (c) the glucose-bound form at 1.20 Å. The crystal structures, molecular dynamics simulation studies and site-directed mutagenesis reveal the mode of substrate binding and interactions at the active site. The results also indicate that AoBgl effectively hydrolyses trisaccharides and higher oligosaccharides. The findings from our structural and biochemical studies would aid in rational engineering efforts to generate superior AoBgl variants and similar GH5 enzymes for their industrial use.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 1","pages":"53-73"},"PeriodicalIF":3.5,"publicationDate":"2024-10-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497592","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-10-24DOI: 10.1002/1873-3468.15044
{"title":"RETRACTION: Role of the PDK1–PKB–GSK3 Pathway in Regulating Glycogen Synthase and Glucose Uptake in the Heart","authors":"","doi":"10.1002/1873-3468.15044","DOIUrl":"10.1002/1873-3468.15044","url":null,"abstract":"<p><b>RETRACTION</b>: A. Mora, K. Sakamoto, E. J. McManus, and D. R. Alessi, “Role of the PDK1–PKB–GSK3 Pathway in Regulating Glycogen Synthase and Glucose Uptake in the Heart,” <i>FEBS Letters</i> 579, no. 17 (2005): 3632–3638, https://doi.org/10.1016/j.febslet.2005.05.040.</p><p>The above article, published online on 06 June 2005 in Wiley Online Library (wileyonlinelibrary.com), has been retracted by agreement between the authors; the journal Editor-in-Chief, Michael Brunner; FEBS Press; and John Wiley and Sons Ltd. The journal was contacted by a representative of the research integrity group at the authors' institute, since an institutional investigation revealed inappropriate splicing and duplication of image sections within Fig. 2A, B and Fig. 3A. Consequently, the conclusions of the paper are substantially compromised, and the institute has recommended the paper to be retracted. The editors of the journal agree with the retraction based on the institutional investigation.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"598 23","pages":"2939"},"PeriodicalIF":3.5,"publicationDate":"2024-10-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15044","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497670","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2024-10-24DOI: 10.1002/1873-3468.15042
Kai Rogge, Tobias Johannes Wagner, Dirk Hoffmeister, Bernhard Rupp, Sebastiaan Werten
{"title":"Substrate recognition by the 4-hydroxytryptamine kinase PsiK in psilocybin biosynthesis","authors":"Kai Rogge, Tobias Johannes Wagner, Dirk Hoffmeister, Bernhard Rupp, Sebastiaan Werten","doi":"10.1002/1873-3468.15042","DOIUrl":"10.1002/1873-3468.15042","url":null,"abstract":"<p>Psilocybin, the natural hallucinogen from <i>Psilocybe</i> (magic) mushrooms, is a highly promising drug candidate for the treatment of depression and several other mental health conditions. Biosynthesis of psilocybin from the amino acid <span>l-</span>tryptophan involves four strictly sequential modifications. The third of these, ATP-dependent phosphorylation of the intermediate 4-hydroxytryptamine, is catalysed by PsiK. Here we present a crystallographic analysis and a structure-based mutagenesis study of this kinase, providing insight into its mode of substrate recognition. The results of our work will support future bioengineering efforts aimed at generating variants of psilocybin with enhanced therapeutic properties.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 3","pages":"447-455"},"PeriodicalIF":3.5,"publicationDate":"2024-10-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.15042","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497671","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}