{"title":"The ATP-bound inward-open conformation of ABCC4 reveals asymmetric ATP binding for substrate transport","authors":"Yue Zhu, Xiaoke Xing, Fuxing Wang, Luojun Chen, Chunhui Zhong, Xiting Lu, Zhanwang Yu, Yongbo Yang, Yi Yao, Qibin Song, Suxia Han, Zheng Liu, Pingfeng Zhang","doi":"10.1002/1873-3468.14955","DOIUrl":"10.1002/1873-3468.14955","url":null,"abstract":"<p>The multidrug resistance-associated protein (MRP) ABCC4 facilitates substrate transport across the cytoplasmic membrane, crucial for normal physiology and mediating multidrug resistance in tumor cells. Despite intensive studies on MRPs, ABCC4's transport mechanism remains incompletely understood. In this study, we unveiled an inward-open conformation with an ATP bound to degenerate NBD1. Additionally, we captured the structure with both ATP and substrate co-bound in the inward-open state. Our findings uncover the asymmetric ATP binding in ABCC4 and provide insights into substrate binding and transport mechanisms. ATP binding to NBD1 is parallel to substrate binding to ABCC4, and is a prerequisite for ATP-bound NBD2-induced global conformational changes. Our findings shed new light on targeting ABCC4 in combination with anticancer therapy.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141418494","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 : 2024-06-17DOI: 10.1002/1873-3468.14957
Alfonso M. D'Alessio, Iolanda Boffa, Lucia De Stefano, Leandro R. Soria, Nicola Brunetti-Pierri
{"title":"Liver gene transfer for metabolite detoxification in inherited metabolic diseases","authors":"Alfonso M. D'Alessio, Iolanda Boffa, Lucia De Stefano, Leandro R. Soria, Nicola Brunetti-Pierri","doi":"10.1002/1873-3468.14957","DOIUrl":"10.1002/1873-3468.14957","url":null,"abstract":"<p>Inherited metabolic disorders (IMDs) are a growing group of genetic diseases caused by defects in enzymes that mediate cellular metabolism, often resulting in the accumulation of toxic substrates. The liver is a highly metabolically active organ that hosts several thousands of chemical reactions. As such, it is an organ frequently affected in IMDs. In this article, we review current approaches for liver-directed gene-based therapy aimed at metabolite detoxification in a variety of IMDs. Moreover, we discuss current unresolved challenges in gene-based therapies for IMDs.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14957","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141330682","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 : 2024-06-17DOI: 10.1002/1873-3468.14959
Roberta Noè, Alessandro Carrer
{"title":"Diet predisposes to pancreatic cancer through cellular nutrient sensing pathways","authors":"Roberta Noè, Alessandro Carrer","doi":"10.1002/1873-3468.14959","DOIUrl":"10.1002/1873-3468.14959","url":null,"abstract":"<p>Pancreatic cancer is a lethal disease with limited effective treatments. A deeper understanding of its molecular mechanisms is crucial to reduce incidence and mortality. Epidemiological evidence suggests a link between diet and disease risk, though dietary recommendations for at-risk individuals remain debated. Here, we propose that cell-intrinsic nutrient sensing pathways respond to specific diet-derived cues to facilitate oncogenic transformation of pancreatic epithelial cells. This review explores how diet influences pancreatic cancer predisposition through nutrient sensing and downstream consequences for (pre-)cancer cell biology. We also examine experimental evidence connecting specific food intake to pancreatic cancer progression, highlighting nutrient sensing as a promising target for therapeutic development to mitigate disease risk.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14959","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141418493","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 : 2024-06-16DOI: 10.1002/1873-3468.14945
{"title":"Corrigendum to: A logical model of Ewing sarcoma cell epithelial-to-mesenchymal transition supports the existence of hybrid cellular phenotypes https://doi.org/10.1002/1873-3468.14724","authors":"","doi":"10.1002/1873-3468.14945","DOIUrl":"10.1002/1873-3468.14945","url":null,"abstract":"<p>This corrigendum has been published to correct errors identified by the authors after publication. These errors were introduced during the preparation of the figures and table. The authors sincerely apologize for any confusion that those minor errors in the original version of this article may have created and emphasize that these mistakes do not affect the conclusions of the article.</p><p><b>Fig. 3.</b> Analysis of model perturbation and state transitions. (A) The stable states resulting from perturbations applied to circuit components are depicted in A. The left-most figure represents the perturbations and the right-most one denotes the stable states, similar to the format used in Fig. 2. The asterisk (*) is employed to indicate that the corresponding component within a given model state can be activated or inactivated. (B) The combined loss (down arrow) and gain (up arrow) of function of the circuit components resulted in abrogated states and subsequent loss of multistability of the wild-type case. E, H, and M represent epithelial, hybrid, and mesenchymal states, respectively. (C) State transition graphs (STGs) depict the transition from the hybrid state for EWS/FLI1 fusion OFF and TGF-β OFF, with miR-145 (upper network) and miR-200 (lower network) capable of assuming all of their possible levels (OFF or ON). (D) Transitions from hybrid states (identified by activation or inactivation of SOX2 and OCT4) for EWS/FLI1 Fusion ON under identical conditions as in (C) for miR-200 (upper network) and miR-145 (lower network). Blue nodes represent transient states, and arrows represent transitions in which the state of the components is represented by plus (+) and minus (−) signs, respectively, denoting component activation or inactivation.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14945","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141330681","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 : 2024-06-16DOI: 10.1002/1873-3468.14958
Daniel R. Fox, Imogen Samuels, Sebastian Binks, Rhys Grinter
{"title":"The structure of a haemoglobin–nanobody complex reveals human β-subunit-specific interactions","authors":"Daniel R. Fox, Imogen Samuels, Sebastian Binks, Rhys Grinter","doi":"10.1002/1873-3468.14958","DOIUrl":"10.1002/1873-3468.14958","url":null,"abstract":"<p>Haemoglobin (Hb) is a vital oxygen carrier in vertebrates. Low blood Hb levels may indicate anaemia or genetic disorders, while its presence in the lower digestive system suggests colon cancer. Detecting and quantifying human Hb is essential for medical diagnostics. A nanobody-based sandwich-ELISA test was recently developed utilising llama-derived nanobodies NbE11 and NbB9. These nanobodies specifically bind to human Hb without cross-reacting with Hb from other vertebrates. Here, we determine the crystal structure of NbE11 in complex with human Hb. NbE11 binds Hb with high affinity, predominantly binding the β-Hb subunit. Structural differences between human Hb and other vertebrates at the NbE11 binding interface likely explain the assay's lack of cross-reactivity, providing insights for developing Hb binding diagnostics.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14958","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141330684","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":"Probing membrane deformation energy by KcsA potassium channel gating under varied membrane thickness and tension","authors":"Yuka Matsuki, Masako Takashima, Misuzu Ueki, Masayuki Iwamoto, Shigetoshi Oiki","doi":"10.1002/1873-3468.14956","DOIUrl":"10.1002/1873-3468.14956","url":null,"abstract":"<p>This study investigated how membrane thickness and tension modify the gating of KcsA potassium channels when simultaneously varied. The KcsA channel undergoes global conformational changes upon gating: expansion of the cross-sectional area and longitudinal shortening upon opening. Thus, membranes impose differential effects on the open and closed conformations, such as hydrophobic mismatches. Here, the single-channel open probability was recorded in the contact bubble bilayer, by which variable thickness membranes under a defined tension were applied. A fully open channel in thin membranes turned to sporadic openings in thick membranes, where the channel responded moderately to tension increase. Quantitative gating analysis prompted the hypothesis that tension augmented the membrane deformation energy when hydrophobic mismatch was enhanced in thick membranes.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14956","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141330683","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":"dAsap regulates cellular protrusions via an Arf6-dependent actin regulatory pathway in S2R+ cells","authors":"Shikha Kushwaha, Bhagaban Mallik, Anjali Bisht, Zeeshan Mushtaq, Srikanth Pippadpally, Nitika Chandra, Subhradip Das, Girish Ratnaparkhi, Vimlesh Kumar","doi":"10.1002/1873-3468.14954","DOIUrl":"10.1002/1873-3468.14954","url":null,"abstract":"<p>Membrane protrusions are fundamental to cellular functions like migration, adhesion, and communication and depend upon dynamic reorganization of the cytoskeleton. GAP-dependent GTP hydrolysis of Arf proteins regulates actin-dependent membrane remodeling. Here, we show that dAsap regulates membrane protrusions in S2R+ cells by a mechanism that critically relies on its ArfGAP domain and relocalization of actin regulators, SCAR, and Ena. While our data reinforce the preference of dAsap for Arf1 GTP hydrolysis <i>in vitro</i>, we demonstrate that induction of membrane protrusions in S2R+ cells depends on Arf6 inactivation. This study furthers our understanding of how dAsap-dependent GTP hydrolysis maintains a balance between active and inactive states of Arf6 to regulate cell shape.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141305820","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 : 2024-06-10DOI: 10.1002/1873-3468.14946
Hiu W. Cheung, Alexander D. Schouw, Zeynep M. Altunay, J. Wesley Maddox, Lyndsay C. Kresic, Brenna C. McAllister, Keaven Caro, Shahnawaz Alam, Angie Huang, Robert S. Pijewski, Amy Lee, David C. Martinelli
{"title":"Creation of a novel CRISPR-generated allele to express HA epitope-tagged C1QL1 and improved methods for its detection at synapses","authors":"Hiu W. Cheung, Alexander D. Schouw, Zeynep M. Altunay, J. Wesley Maddox, Lyndsay C. Kresic, Brenna C. McAllister, Keaven Caro, Shahnawaz Alam, Angie Huang, Robert S. Pijewski, Amy Lee, David C. Martinelli","doi":"10.1002/1873-3468.14946","DOIUrl":"10.1002/1873-3468.14946","url":null,"abstract":"<p>C1QL1 is expressed in a subset of cells in the brain and likely has pleiotropic functions, including the regulation of neuron-to-neuron synapses. Research progress on C1QL proteins has been slowed by a dearth of available antibodies. Therefore, we created a novel knock-in mouse line in which an HA-tag is inserted into the endogenous <i>C1ql1</i> locus. We examined the entire brain, identifying previously unappreciated nuclei expressing C1QL1, presumably in neurons. By total numbers, however, the large majority of C1QL1-expressing cells are of the oligodendrocyte lineage. Subcellular immunolocalization of synaptic cleft proteins is challenging, so we developed a new protocol to improve signal at synapses. Lastly, we compared various anti-HA antibodies to assist future investigations using this and likely other HA epitope-tagged alleles.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141300466","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 : 2024-06-10DOI: 10.1002/1873-3468.14948
Julian Zacharjasz, Marta Sztachera, Michał Smuszkiewicz, Monika Piwecka
{"title":"Micromanaging the neuroendocrine system – A review on miR-7 and the other physiologically relevant miRNAs in the hypothalamic–pituitary axis","authors":"Julian Zacharjasz, Marta Sztachera, Michał Smuszkiewicz, Monika Piwecka","doi":"10.1002/1873-3468.14948","DOIUrl":"10.1002/1873-3468.14948","url":null,"abstract":"<p>The hypothalamic–pituitary axis is central to the functioning of the neuroendocrine system and essential for regulating physiological and behavioral homeostasis and coordinating fundamental body functions. The expanding line of evidence shows the indispensable role of the microRNA pathway in regulating the gene expression profile in the developing and adult hypothalamus and pituitary gland. Experiments provoking a depletion of miRNA maturation in the context of the hypothalamic–pituitary axis brought into focus a prominent involvement of miRNAs in neuroendocrine functions. There are also a few individual miRNAs and miRNA families that have been studied in depth revealing their crucial role in mediating the regulation of fundamental processes such as temporal precision of puberty timing, hormone production, fertility and reproduction capacity, and energy balance. Among these miRNAs, miR-7 was shown to be hypothalamus-enriched and the top one highly expressed in the pituitary gland, where it has a profound impact on gene expression regulation. Here, we review miRNA profiles, knockout phenotypes, and miRNA interaction (targets) in the hypothalamic–pituitary axis that advance our understanding of the roles of miRNAs in mammalian neurosecretion and related physiology.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.14948","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141300467","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 : 2024-06-09DOI: 10.1002/1873-3468.14951
Tomoki Sorada, Erik Walinda, Daichi Morimoto
{"title":"Cyclization of ubiquitin chains reinforces their recognition by ZNF216","authors":"Tomoki Sorada, Erik Walinda, Daichi Morimoto","doi":"10.1002/1873-3468.14951","DOIUrl":"10.1002/1873-3468.14951","url":null,"abstract":"<p>Lys48-linked ubiquitin chains, regulating proteasomal protein degradation, are known to include cyclized forms. This cyclization hinders recognition by many downstream proteins by occluding the Ile44-centered patch. In contrast, the A20-like Znf domain of ZNF216 (a ubiquitin-binding protein, A20 Znf) is expected to bind to cyclic ubiquitin chains <i>via</i> constitutively solvent-exposed surfaces. However, the underlying interaction mechanism remains unclear. Here, our ITC and NMR experiments collectively showed that cyclization did not interfere with and even slightly enhance the molecular recognition of diubiquitin by A20 Znf. This effect is explained by the cyclization-induced repression of conformational dynamics in diubiquitin and an enlarged molecular interface in the complex. Thus, these results suggest that cyclic ubiquitin chains can be involved in regulation of ZNF216-dependent proteasomal protein degradation.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":null,"pages":null},"PeriodicalIF":3.5,"publicationDate":"2024-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141295858","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}