Biological Chemistry最新文献

The 76th Mosbacher Colloquium: AI-driven (r)evolution in structural biology and protein design. 第76届Mosbacher学术讨论会：结构生物学和蛋白质设计中人工智能驱动的进化。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-09-30 DOI: 10.1515/hsz-2025-0184

Birte Höcker, Ina Koch, Janosch Hennig

引用次数: 0

Manipulating mitochondrial gene expression. 操纵线粒体基因表达。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-09-15 DOI: 10.1515/hsz-2025-0170

Drishan Dahal, Luis D Cruz-Zargoza, Peter Rehling

引用次数: 0

Conserved function, divergent evolution: mitochondrial outer membrane insertases across eukaryotes. 保守功能，分化进化：真核生物线粒体外膜插入酶。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-08-11 DOI: 10.1515/hsz-2025-0169

Anna Roza Dimogkioka, Doron Rapaport

{"title":"Conserved function, divergent evolution: mitochondrial outer membrane insertases across eukaryotes.","authors":"Anna Roza Dimogkioka, Doron Rapaport","doi":"10.1515/hsz-2025-0169","DOIUrl":"https://doi.org/10.1515/hsz-2025-0169","url":null,"abstract":"Mitochondrial function relies heavily on the proper targeting and insertion of nuclear-encoded proteins into the outer mitochondrial membrane (OMM), a process mediated by specialised biogenesis factors known as insertases. These insertases are essential for the membrane integration of α-helical OMM proteins, which contain one or multiple hydrophobic transmembrane segments. While the general mechanisms of mitochondrial protein import are well established, recent research has shed light on the diversity and evolutionary conservation of OMM insertases across eukaryotic lineages. In Saccharomyces cerevisiae, the mitochondrial import (MIM) complex, composed of Mim1 and Mim2, facilitates the integration of various α-helical OMM proteins, often in cooperation with import receptors such as Tom20 and Tom70. In Trypanosoma brucei, the functional MIM counterpart pATOM36 performs a similar role despite lacking sequence and structural homology, reflecting a case of convergent evolution. In mammals, MTCH2 has emerged as the principal OMM insertase, with MTCH1 playing a secondary, partially redundant role. This review provides a comparative analysis of these insertases, emphasising their conserved functionality, species-specific adaptations, and mechanistic nuances.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2025-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144803360","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}

引用次数: 0

Biogenesis and function of the mitochondrial solute carrier (SLC25) family in yeast. 酵母线粒体溶质载体（SLC25）家族的生物发生和功能。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-06-24 DOI: 10.1515/hsz-2025-0152

Celina Nauerz, Ophry Pines, Johannes M Herrmann

{"title":"Biogenesis and function of the mitochondrial solute carrier (SLC25) family in yeast.","authors":"Celina Nauerz, Ophry Pines, Johannes M Herrmann","doi":"10.1515/hsz-2025-0152","DOIUrl":"https://doi.org/10.1515/hsz-2025-0152","url":null,"abstract":"The mitochondrial solute carrier family, also called SLC25 family, comprises a group of structurally and evolutionary related transporters that are embedded in the mitochondrial inner membrane. About 35 and 53 mitochondrial carrier proteins are known in yeast and human cells, respectively, which transport nucleotides, metabolites, amino acids, fatty acids, inorganic ions and cofactors across the inner membrane. They are proposed to function by a common rocker-switch mechanism, alternating between conformations that expose substrate-binding pockets to the intermembrane space (cytoplasmic state) and to the matrix (matrix state). The substrate specificities of both states differ so that carriers can operate as antiporters, symporters or uniporters. Carrier proteins share a characteristic structure comprising six transmembrane domains and expose both termini to the intermembrane space. Most carriers lack N-terminal presequences but use carrier-specific internal targeting signals that direct them into mitochondria via a specific import route, known as the 'carrier pathway'. Owing to their hydrophobicity and aggregation-prone nature, the mistargeting of carriers can lead to severe proteotoxic stress and diseases. In this review article, we provide an overview about the structure, biogenesis and physiology of carrier proteins, focusing on baker's yeast where their biology is particularly well characterized.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":" ","pages":""},"PeriodicalIF":2.4,"publicationDate":"2025-06-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144940948","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}

引用次数: 0

Rapid method for evaluation of CK2 enzymatic activity and CK2α/CK2β-interaction in Escherichia coli cell lysates. 快速评价大肠杆菌细胞裂解物中CK2酶活性和CK2α/CK2β相互作用的方法

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-06-17 Print Date: 2025-03-26 DOI: 10.1515/hsz-2024-0159

Alexander Gast, Sebastian Schreiber, Joachim Jose

{"title":"Rapid method for evaluation of CK2 enzymatic activity and CK2α/CK2β-interaction in Escherichia coli cell lysates.","authors":"Alexander Gast, Sebastian Schreiber, Joachim Jose","doi":"10.1515/hsz-2024-0159","DOIUrl":"10.1515/hsz-2024-0159","url":null,"abstract":"This study introduces a novel, rapid assay to measure CK2α activity in Escherichia coli cell lysates. By fusing CK2α with the fluorescent protein mScarlet it was possible to quantify CK2α concentration directly in lysates. We used the dose-dependent increase of CK2α activity after addition of CK2β1-193 to determine the dissociation constants (K D ) of the CK2α/CK2β-interaction. As a first trial, activity and affinity of the variant CK2αR191Q to CK2β1-193 was investigated using the developed assays. This mutation in the CSNK2A1 gene, encoding CK2α is related to the Okur-Chung Neurodevelopmental Syndrome (OCNDS). Apparent K D values of 13 nM for the CK2αR191Q/CK2β interaction and 7.4 nM for the CK2α/CK2β interaction were determined using nonlinear regression. Uncertainties with regards to the concentration of both binding partners were propagated through the entire process of nonlinear regression by Monte Carlo simulations. This way, accuracy confidence intervals of the K D -values were derived. This resulted in 96.4 % confidence that the accurate K D -values of the CK2α-CK2β and CK2αR191Q-CK2β interactions were different. The results suggest potential disruptions in oligomeric assembly caused by the R191Q mutation.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":"406 3-4","pages":"117-124"},"PeriodicalIF":2.4,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144641705","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}

引用次数: 0

Triple SELEX approach for the selection of a highly specific RNA aptamer binding homoeriodictyol. 三重SELEX方法选择高特异性RNA适体结合同源碘二醇。

IF 2.9 4区生物学

Biological Chemistry Pub Date : 2025-06-03 DOI: 10.1515/hsz-2025-0118

Janis Hoetzel, Cristina Bofill-Bosch, Andres W Martinez, Martin M Rudolph, Florian Groher, Beatrix Suess

{"title":"Triple SELEX approach for the selection of a highly specific RNA aptamer binding homoeriodictyol.","authors":"Janis Hoetzel, Cristina Bofill-Bosch, Andres W Martinez, Martin M Rudolph, Florian Groher, Beatrix Suess","doi":"10.1515/hsz-2025-0118","DOIUrl":"https://doi.org/10.1515/hsz-2025-0118","url":null,"abstract":"The application of synthetic riboswitches or aptamer-based biosensors for the monitoring of engineered metabolic pathways greatly depends on a high degree of target molecule specificity. Since metabolic pathways include close derivatives that often differ only in single moieties, the binding specificity of aptamers utilized for these systems has to be high. In the present study, we selected an RNA aptamer that is highly specific in its binding to homoeriodictyol while discriminating its close derivatives eriodictyol and naringenin. This high degree in specificity was achieved through three consecutive SELEX approaches while the selection parameters were adjusted and refined from one to the next. The adjustments along the process, with the selection outcome and next-generation sequencing analysis of the selection rounds, led to valuable insights into the stringency necessary to facilitate target specificity in aptamers obtained from SELEX. From the third selection, we obtained a highly binding specific aptamer and examined its structure and binding properties. Overall, our results connect the importance of selection stringency with SELEX outcome and aptamer specificity while providing a highly selective, homoeriodictyol-binding RNA aptamer.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":" ","pages":""},"PeriodicalIF":2.9,"publicationDate":"2025-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144214724","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}

引用次数: 0

70 years of CK2: still exciting, essential - and enigmatic! 70年的CK2：仍然令人兴奋，必不可少和神秘！

IF 2.9 4区生物学

Biological Chemistry Pub Date : 2025-06-03 Print Date: 2025-03-26 DOI: 10.1515/hsz-2025-0147

Karsten Niefind, Claudia Götz, Joachim Jose

引用次数: 0

TBK1 alleviates triptolide-induced nephrotoxic injury by up-regulating mitophagy in HK2 cells. TBK1通过上调HK2细胞的线粒体自噬来减轻雷公藤甲素引起的肾毒性损伤。

IF 2.9 4区生物学

Biological Chemistry Pub Date : 2025-05-07 DOI: 10.1515/hsz-2024-0141

Xinxin Lu, Qionghui Huang, Zhaohui He, Huanjie Zhou, Zhenwei Chen, Youjian Zhou, Tiecheng Yang, Lang-Jing Zhu

{"title":"TBK1 alleviates triptolide-induced nephrotoxic injury by up-regulating mitophagy in HK2 cells.","authors":"Xinxin Lu, Qionghui Huang, Zhaohui He, Huanjie Zhou, Zhenwei Chen, Youjian Zhou, Tiecheng Yang, Lang-Jing Zhu","doi":"10.1515/hsz-2024-0141","DOIUrl":"https://doi.org/10.1515/hsz-2024-0141","url":null,"abstract":"Tripterygium wilfordii has been used for a long time to treat autoimmune diseases. Its toxic side effects limit its clinical application. Mitophagy plays a protective role in various diseases. TANK-binding kinase 1 (TBK1) is a mitophagy-promoting molecule. This study aimed to investigate whether TBK1 could alleviate triptolide (TP)-induced nephrotoxicity by regulating mitophagy. To establish TP-induced nephrotoxic injury in animal model, 16 Sprague-Dawley rats were administered with TP by gavage, then renal tissues were collected for hematoxylin and eosin (HE) staining, western blotting and immunofluorescence analysis. To investigate whether up-regulation of TBK1 could alleviate TP-induced nephrotoxic injury and the specific mechanism, HK-2 cells were cultured in vitro, transfected with TBK1-overexpression recombinant lentivirus, then treated with TP. Western blotting, immunofluorescence, flow cytometry, multifunctional microplate detector were used to detect the relevant molecules. Here we found that TP caused kidney function damage, declined mitophagy levels, decreased the expression of TBK1 and mitophagy-related proteins in rats. TP stimulation decreased cell viability, mitochondrial membrane potential, mitophagy-protein, the formation of mito-autophagosomes and mito-autophagolysosomes in HK-2 cells. Upregulating TBK1 could reverse these damages. In summary, TP-induced cell injury had decreased mitophagy levels. Up-regulating TBK1 could increase mitophagy and further alleviate TP-induced cell injury.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":" ","pages":""},"PeriodicalIF":2.9,"publicationDate":"2025-05-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143960337","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}

引用次数: 0

CK2 control of human papillomavirus life cycles. CK2对人乳头瘤病毒生命周期的控制。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-05-05 Print Date: 2025-03-26 DOI: 10.1515/hsz-2024-0150

Apurva T Prabhakar, Iain M Morgan

引用次数: 0

Pathogenic missense variants of CSNK2B associated with Poirier-Bienvenu neurodevelopmental disorder impact differently on CK2 holoenzyme formation. 与Poirier-Bienvenu神经发育障碍相关的CSNK2B致病性错义变异对CK2全酶形成的影响不同。

IF 2.4 4区生物学

Biological Chemistry Pub Date : 2025-05-05 Print Date: 2025-03-26 DOI: 10.1515/hsz-2024-0162

Hanna Kavaliova, Barbara Lecis, Demetra Ballardin, Laetitia Cobret, Thierry Bienvenu, Severine Morisset-Lopez, Heike Rebholz

{"title":"Pathogenic missense variants of CSNK2B associated with Poirier-Bienvenu neurodevelopmental disorder impact differently on CK2 holoenzyme formation.","authors":"Hanna Kavaliova, Barbara Lecis, Demetra Ballardin, Laetitia Cobret, Thierry Bienvenu, Severine Morisset-Lopez, Heike Rebholz","doi":"10.1515/hsz-2024-0162","DOIUrl":"10.1515/hsz-2024-0162","url":null,"abstract":"Poirier-Bienvenu neurodevelopmental syndrome is a neurodevelopmental disorder associated with de novo variants of the CSNK2B gene, characterized by intellectual disability, developmental delay, frequent seizures and more. While the majority of variants are nonsense variants leading to abortion of protein translation and no or truncated CK2β, many pathogenic missense variants also exist. We investigated the effect of four variants on CK2 holoenzyme formation and activity. We show that variants in the Zinc-finger region leads to reduced protein stability and altered subcellular localization. The instability is partly mediated by proteasomal and lysosomal degradation. We further show that homodimerization of these CK2β variants (p.Arg111Pro, p.Cys137Phe), localized within the Zinc-finger domain, is significantly reduced, while CK2α binding appears not affected. Other variants, p.Asp32Asn and p.Arg86Cys, did not affect stability or CK2β/α binding. For these mutants, the key to understanding the pathological mechanism may depend on external factors, such as altered protein-protein interaction. We conclude that Zinc-finger domain variants appear to destabilize the protein and affect holoenzyme formation, effectively reducing the pool of competent holoCK2. In the context of POBINDS, our findings suggest that Zinc-finger domain variants are likely to affect cells similarly to truncating and splicing variants with reduced translation of full-length CK2β.","PeriodicalId":8885,"journal":{"name":"Biological Chemistry","volume":" ","pages":"139-154"},"PeriodicalIF":2.4,"publicationDate":"2025-05-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143960535","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}

引用次数: 0