首页 > 最新文献

Journal of Inorganic Biochemistry最新文献

英文 中文
Impact of electrostatic distribution in CYP3A4 on the regioselectivity of triazolam metabolism and regulation of its metabolic rate by the iron spin states: Insights from MD simulations and QM calculations CYP3A4静电分布对三唑仑代谢区域选择性的影响以及铁自旋态对其代谢速率的调节:来自MD模拟和QM计算的见解
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-25 DOI: 10.1016/j.jinorgbio.2025.113162
Yan Zhao , Xinyu Ma , Qingchuan Zheng
Triazolam (TRZ) is a representative benzodiazepine sedative-hypnotic drug that has gradually been abused due to the increasing societal pressures. To further provide a theoretical basis for the rationale use of TRZ and obtain more information for its metabolic process, in this study, human CYP3A4 was employed as the metabolic enzyme to investigate the metabolic mechanism of TRZ by multiple computational methods. Here, three types of substrate-binding conformations related to the diversity of TRZ metabolites are identified (pose A, pose B and pose C). The “sandwich” structure and the π-π stacking between TRZ and F304/porphyrin ring may be the key factors in dominating three substrate-binding conformations. Furthermore, we discovered pose A is the predominant binding mode, with Cα-H serving as the key metabolic site and CYP3A4-catalyzed Cα-H hydroxylation follows a hydrogen abstraction-rebound mechanism. More importantly, in hydroxylation process, the spin states of iron can regulate the metabolic reaction rate of TRZ and the highest rate of metabolism (5.96 s−1) is found in the quartet spin states. Based on our findings, it can be suggested that rational incorporating aromatic groups into TRZ could improve its metabolic stability. Meanwhile, the transition of the heme iron from a low-spin to a high-spin state appears to accelerate TRZ metabolism, potentially leading to the accumulation of α-OH triazolam in vivo, which may pose risks to human health. These results could enhance our understanding of CYP3A4-mediated regioselective metabolism of TRZ and provide a theoretical foundation and new perspective for studies on the metabolism of other triazole drugs.
三唑仑(TRZ)是一种典型的苯二氮卓类镇静催眠药物,由于社会压力的增加而逐渐被滥用。为了进一步为TRZ的合理使用提供理论依据,获得更多关于其代谢过程的信息,本研究以人CYP3A4为代谢酶,通过多种计算方法研究TRZ的代谢机制。在这里,确定了三种与TRZ代谢物多样性相关的底物结合构象(pose A, pose B和pose C)。TRZ和F304/卟啉环之间的“三明治”结构和π-π堆积可能是决定三种底物结合构象的关键因素。此外,我们发现姿势A是主要的结合模式,Cα-H是关键的代谢位点,cyp3a4催化的Cα-H羟基化遵循氢提取-反弹机制。更重要的是,在羟基化过程中,铁的自旋态可以调节TRZ的代谢反应速率,其中四重奏自旋态的代谢速率最高(5.96 s−1)。综上所述,在TRZ中合理掺入芳香族可以提高其代谢稳定性。同时,血红素铁从低自旋到高自旋状态的转变似乎加速了TRZ的代谢,可能导致α-OH三唑仑在体内蓄积,可能对人体健康造成危害。这些结果可以加深我们对cyp3a4介导的TRZ的区域选择性代谢的认识,并为其他三唑类药物的代谢研究提供理论基础和新的视角。
{"title":"Impact of electrostatic distribution in CYP3A4 on the regioselectivity of triazolam metabolism and regulation of its metabolic rate by the iron spin states: Insights from MD simulations and QM calculations","authors":"Yan Zhao ,&nbsp;Xinyu Ma ,&nbsp;Qingchuan Zheng","doi":"10.1016/j.jinorgbio.2025.113162","DOIUrl":"10.1016/j.jinorgbio.2025.113162","url":null,"abstract":"<div><div>Triazolam (TRZ) is a representative benzodiazepine sedative-hypnotic drug that has gradually been abused due to the increasing societal pressures. To further provide a theoretical basis for the rationale use of TRZ and obtain more information for its metabolic process, in this study, human CYP3A4 was employed as the metabolic enzyme to investigate the metabolic mechanism of TRZ by multiple computational methods. Here, three types of substrate-binding conformations related to the diversity of TRZ metabolites are identified (pose A, pose B and pose C). The “sandwich” structure and the π-π stacking between TRZ and F304/porphyrin ring may be the key factors in dominating three substrate-binding conformations. Furthermore, we discovered pose A is the predominant binding mode, with Cα-H serving as the key metabolic site and CYP3A4-catalyzed Cα-H hydroxylation follows a hydrogen abstraction-rebound mechanism. More importantly, in hydroxylation process, the spin states of iron can regulate the metabolic reaction rate of TRZ and the highest rate of metabolism (5.96 s<sup>−1</sup>) is found in the quartet spin states. Based on our findings, it can be suggested that rational incorporating aromatic groups into TRZ could improve its metabolic stability. Meanwhile, the transition of the heme iron from a low-spin to a high-spin state appears to accelerate TRZ metabolism, potentially leading to the accumulation of α-OH triazolam in vivo, which may pose risks to human health. These results could enhance our understanding of CYP3A4-mediated regioselective metabolism of TRZ and provide a theoretical foundation and new perspective for studies on the metabolism of other triazole drugs.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113162"},"PeriodicalIF":3.2,"publicationDate":"2025-11-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145617585","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Thiodiacetate vs. oxydiacetate: physicochemical and biological properties of new heteroligand (acetylacetonate)oxidovanadium(IV) complexes 硫代二乙酸酯与氧化二乙酸酯:新型异聚物(乙酰丙酮酸)氧化钒(IV)配合物的理化和生物学特性
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-24 DOI: 10.1016/j.jinorgbio.2025.113155
Dariusz Wyrzykowski , Katarzyna Chmur , Jakub Brzeski , Artur Sikorski , Olga Tovchiga , Justyna Budka , Iwona Inkielewicz-Stępniak , Aleksandra Tesmar
This research aimed to compare the crystal structure, physicochemical, and biological properties of novel (acetylacetonate)(thiodiacetato)oxidovanadium(IV) complex salts, namely [QH][VO(acac)(tda)] (1) and [(acr)H][VO(acac)(tda)] (2) (acac = acetylacetonate, tda2− = thiodiacetate, Q = quinoline, acr = acridine) with previously reported oxydiacetate (oda) analogues: [QH][VO(acac)(oda)] (3) and [(acr)H][VO(acac)(oda)](H2O)2 (4). A combination of experimental data, including X-ray crystallography, IR spectroscopy, potentiometric measurements and ESI-MS, and density functional theory (DFT) calculations enables thorough characterization of the complexes in the solid state and in solution. It has been demonstrated that the observed differences in the nature of VS (thioether) and VO (ether) dative bonds have only a slight impact on orbital energy levels and spin density distribution. At the same time, these minor differences do not significantly affect the thermodynamic stability of the complexes: logß1110 {[VO(acac)(tda)]} = 16.91 and logß1110 {[VO(acac)(oda)]} = 16.45. Additionally, the calculated thermodynamic parameters for the formation of these complexes (∆H, T∆S, ∆G in kcal mol−1, at 298 K) are −66.72, −16.38, and − 50.34 for [VO(acac)(tda)], and − 68.47, −15.64, and − 52.82 for [VO(acac)(oda)], respectively. The biological evaluations showed promising selective cytotoxic activity of the investigated complex salts against the human osteosarcoma cell line MG-63. The mechanism of biological action of these complexes appears to involve disruption of cell cycle regulation and induction of apoptosis. The counterions (acridine and quinoline) alone do not significantly affect cell cycle distribution, suggesting that the cytotoxic and cell cycle effects are primarily due to the [VO(acac)(tda)] and [VO(acac)(oda)] species.
本研究旨在比较新型(乙酰丙酮)(硫代二乙酰乙酸)氧化钒(IV)络合盐[QH][VO(acac)(tda)](1)和[(acr)H][VO(acac)(tda)] (2) (acac =乙酰丙酮,tda2−=硫代二乙酸,Q =喹啉,acr =吖啶)与先前报道的氧化二乙酸(oda−)类似物[QH][VO(acac)(oda)](3)和[(acr)H][VO(acac)(oda)](H2O)2(4)的晶体结构、物理化学和生物学特性。结合实验数据,包括x射线晶体学、红外光谱、电位测量和ESI-MS,以及密度泛函理论(DFT)计算,可以全面表征固态和溶液中的配合物。已经证明,观察到的VS(硫醚)和VO(醚)键性质的差异对轨道能级和自旋密度分布只有轻微的影响。同时,这些微小的差异并没有显著影响配合物的热力学稳定性:logß1110 {[VO(acac)(tda)]−}= 16.91和logß1110 {[VO(acac)(oda)]−}= 16.45。此外,这些配合物形成的计算热力学参数(∆H,∆S,∆G, kcal mol−1,在298 K下)[VO(acac)(tda)]−分别为- 66.72,- 16.38和- 50.34,[VO(acac)(oda)]−分别为- 68.47,- 15.64和- 52.82。生物学评价表明,复合盐对MG-63人骨肉瘤细胞系具有良好的选择性细胞毒活性。这些复合物的生物作用机制似乎涉及破坏细胞周期调节和诱导细胞凋亡。单独的反离子(吖啶和喹啉)不会显著影响细胞周期分布,这表明细胞毒性和细胞周期效应主要是由[VO(acac)(tda)] -和[VO(acac)(oda)] -两种物质引起的。
{"title":"Thiodiacetate vs. oxydiacetate: physicochemical and biological properties of new heteroligand (acetylacetonate)oxidovanadium(IV) complexes","authors":"Dariusz Wyrzykowski ,&nbsp;Katarzyna Chmur ,&nbsp;Jakub Brzeski ,&nbsp;Artur Sikorski ,&nbsp;Olga Tovchiga ,&nbsp;Justyna Budka ,&nbsp;Iwona Inkielewicz-Stępniak ,&nbsp;Aleksandra Tesmar","doi":"10.1016/j.jinorgbio.2025.113155","DOIUrl":"10.1016/j.jinorgbio.2025.113155","url":null,"abstract":"<div><div>This research aimed to compare the crystal structure, physicochemical, and biological properties of novel (acetylacetonate)(thiodiacetato)oxidovanadium(IV) complex salts, namely [QH][VO(acac)(tda)] (<strong>1</strong>) and [(acr)H][VO(acac)(tda)] (<strong>2</strong>) (acac = acetylacetonate, tda<sup>2−</sup> = thiodiacetate, Q = quinoline, acr = acridine) with previously reported oxydiacetate (oda<sup>−</sup>) analogues: [QH][VO(acac)(oda)] (<strong>3</strong>) and [(acr)H][VO(acac)(oda)](H<sub>2</sub>O)<sub>2</sub> (<strong>4</strong>). A combination of experimental data, including X-ray crystallography, IR spectroscopy, potentiometric measurements and ESI-MS, and density functional theory (DFT) calculations enables thorough characterization of the complexes in the solid state and in solution. It has been demonstrated that the observed differences in the nature of <em>V</em><img>S (thioether) and V<img>O (ether) dative bonds have only a slight impact on orbital energy levels and spin density distribution. At the same time, these minor differences do not significantly affect the thermodynamic stability of the complexes: log<em>ß</em><sub>1110</sub> {[VO(acac)(tda)]<sup>−</sup>} = 16.91 and log<em>ß</em><sub>1110</sub> {[VO(acac)(oda)]<sup>−</sup>} = 16.45. Additionally, the calculated thermodynamic parameters for the formation of these complexes (∆<em>H</em>, T∆<em>S</em>, ∆<em>G</em> in kcal mol<sup>−1</sup>, at 298 K) are −66.72, −16.38, and − 50.34 for [VO(acac)(tda)]<sup>−</sup>, and − 68.47, −15.64, and − 52.82 for [VO(acac)(oda)]<sup>−</sup>, respectively. The biological evaluations showed promising selective cytotoxic activity of the investigated complex salts against the human osteosarcoma cell line MG-63. The mechanism of biological action of these complexes appears to involve disruption of cell cycle regulation and induction of apoptosis. The counterions (acridine and quinoline) alone do not significantly affect cell cycle distribution, suggesting that the cytotoxic and cell cycle effects are primarily due to the [VO(acac)(tda)]<sup>−</sup> and [VO(acac)(oda)]<sup>−</sup> species.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113155"},"PeriodicalIF":3.2,"publicationDate":"2025-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145600641","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Three cobalt(II) complexes containing pyrimidylanthrahydrazone ligands: Synthesis, crystal structure, DNA binding, anticancer activity and structure-activity relationship 三种含嘧啶酰腙配体的钴(II)配合物:合成、晶体结构、DNA结合、抗癌活性及构效关系
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-24 DOI: 10.1016/j.jinorgbio.2025.113158
Jia-yu Xu , Xue-bin Bi , Sha-sha Luo, Yue Huang, Chen-yu Wang, Chang-chun Wen, Rui-xue Liu, Yan-cheng Liu, Hong Liang
This research presents the design, synthesis, structural characterization, and evaluation of the anticancer activities of three new pyrimidylanthrahydrazone cobalt(II) complexes: 1) 9-MPMAH-Co, 2) 9-FPMAH-Co, and 3) 9-PMAH-Co. Single-crystal X-ray diffraction analysis confirmed that all three complexes adopt a hexacoordinate mononuclear geometry. However, differences in their coordination modes were observed due to variations in the ligand substituents (-CH3, -F, -H). Spectroscopic DNA interaction studies indicated that all three cobalt complexes exhibit varying levels of DNA intercalation. Topoisomerase I inhibition assays revealed that 9-PMAH-Co demonstrates significant enzyme inhibition at a low concentration of 1 μM. In vitro antiproliferative assays confirmed that 9-PMAH-Co exhibits potent cytotoxic activity against SK-OV-3 and HeLa-229 cancer cell lines, with IC₅₀ values of 4.99 ± 0.18 μM and 8.09 ± 1.13 μM, respectively, while showing reduced toxicity toward normal liver cells (HL-7702) compared to cisplatin. Further investigation through cell cycle analysis indicated that 9-PMAH-Co induces G2/M phase arrest in SK-OV-3 cells, with a population increase to 91.37 % (Δ = 76.59 %). Studies on the structural-activity relationship suggest that the synergistic interactions between the ligand substituents and the cobalt center play a crucial role in modulating biological activity, highlighting 9-PMAH-Co as a promising lead compound for the development of targeted anticancer agents.
本文介绍了三种新型嘧啶酰腙钴(II)配合物的设计、合成、结构表征和抗癌活性评价:1)9-MPMAH-Co、2)9-FPMAH-Co和3)9-PMAH-Co。单晶x射线衍射分析证实,这三种配合物均采用六坐标单核几何结构。然而,由于配体取代基(-CH3, -F, -H)的不同,它们的配位模式也不同。光谱DNA相互作用研究表明,这三种钴配合物都表现出不同水平的DNA嵌入。拓扑异构酶I抑制实验表明,在1 μM的低浓度下,9-PMAH-Co具有显著的酶抑制作用。体外抗增殖试验证实,9-PMAH-Co对SK-OV-3和HeLa-229癌细胞系具有强效的细胞毒活性,IC₅0值分别为4.99±0.18 μM和8.09±1.13 μM,与顺铂相比,对正常肝细胞(HL-7702)的毒性降低。进一步的细胞周期分析表明,9-PMAH-Co诱导SK-OV-3细胞G2/M期阻滞,种群增加到91.37% (Δ = 76.59%)。结构-活性关系的研究表明,配体取代基与钴中心之间的协同相互作用在调节生物活性中起着至关重要的作用,突出了9-PMAH-Co是开发靶向抗癌药物的有前途的先导化合物。
{"title":"Three cobalt(II) complexes containing pyrimidylanthrahydrazone ligands: Synthesis, crystal structure, DNA binding, anticancer activity and structure-activity relationship","authors":"Jia-yu Xu ,&nbsp;Xue-bin Bi ,&nbsp;Sha-sha Luo,&nbsp;Yue Huang,&nbsp;Chen-yu Wang,&nbsp;Chang-chun Wen,&nbsp;Rui-xue Liu,&nbsp;Yan-cheng Liu,&nbsp;Hong Liang","doi":"10.1016/j.jinorgbio.2025.113158","DOIUrl":"10.1016/j.jinorgbio.2025.113158","url":null,"abstract":"<div><div>This research presents the design, synthesis, structural characterization, and evaluation of the anticancer activities of three new pyrimidylanthrahydrazone cobalt(II) complexes: <strong>1</strong>) 9-MPMAH-Co, <strong>2</strong>) 9-FPMAH-Co, and <strong>3</strong>) 9-PMAH-Co. Single-crystal X-ray diffraction analysis confirmed that all three complexes adopt a hexacoordinate mononuclear geometry. However, differences in their coordination modes were observed due to variations in the ligand substituents (-CH<sub>3</sub>, -F, -H). Spectroscopic DNA interaction studies indicated that all three cobalt complexes exhibit varying levels of DNA intercalation. Topoisomerase I inhibition assays revealed that 9-PMAH-Co demonstrates significant enzyme inhibition at a low concentration of 1 μM. <em>In vitro</em> antiproliferative assays confirmed that 9-PMAH-Co exhibits potent cytotoxic activity against SK-OV-3 and HeLa-229 cancer cell lines, with IC₅₀ values of 4.99 ± 0.18 μM and 8.09 ± 1.13 μM, respectively, while showing reduced toxicity toward normal liver cells (HL-7702) compared to cisplatin. Further investigation through cell cycle analysis indicated that 9-PMAH-Co induces G2/M phase arrest in SK-OV-3 cells, with a population increase to 91.37 % (Δ = 76.59 %). Studies on the structural-activity relationship suggest that the synergistic interactions between the ligand substituents and the cobalt center play a crucial role in modulating biological activity, highlighting 9-PMAH-Co as a promising lead compound for the development of targeted anticancer agents.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113158"},"PeriodicalIF":3.2,"publicationDate":"2025-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145666590","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Combined computational and bioinformatic approach to uncover the pre-covalent protein interactions of auranofin and its chlorido derivative Au(PEt₃)Cl 结合计算和生物信息学方法揭示金糠蛋白及其氯基衍生物Au(PEt₃)Cl的预共价蛋白相互作用
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-24 DOI: 10.1016/j.jinorgbio.2025.113161
Iogann Tolbatov , Alessandro Marrone
Auranofin (AF) is a clinically approved gold(I) metallodrug with recognized anti-inflammatory and anticancer properties, whose mechanism of action relies on the covalent binding at key selenoproteins and thiols causing their irreversible deactivation. While the final covalent binding event is well-documented, the initial non-covalent recognition phase that precedes it, and which likely governs the drug's selectivity, remains poorly characterized by experimental methods. To address this gap, we employed density functional theory (DFT) calculations to systematically investigate the weak, pre-covalent interactions between auranofin (AF) or its chlorido derivative, Au(PEt3 )Cl (AFCl), with model protein residues. Our results reveal distinct non-covalent interactions preferences for each drug: AF shows a stronger affinity for charged amino acid residues, while AFCl exhibits a marked preference for aromatic and some charged residues. We demonstrate that these initial non-covalent interactions induce a significant redistribution of electron density. This effect alters the local electronic properties of the gold center and its bond to the labile ligand, effectively priming the drug for subsequent covalent attack. We then utilized the computationally derived geometric assets to perform a comprehensive motif search within the Protein Data Bank (PDB) database, which identified ten protein targets with significant therapeutic relevance. This bioinformatic analysis provided a general picture of how these gold compounds navigate their biological environment and led to the identification of targets. This pre-covalent interaction with protein is not a random anchoring process but a crucial preparatory step for the targeted attachment of gold-based drugs.
金嘌呤(AF)是一种临床批准的金(I)金属药物,具有公认的抗炎和抗癌特性,其作用机制依赖于关键硒蛋白和硫醇的共价结合,导致其不可逆失活。虽然最终的共价结合事件有充分的文献记载,但在此之前的初始非共价识别阶段,可能决定药物的选择性,仍然缺乏实验方法的表征。为了解决这一差距,我们采用密度泛函理论(DFT)计算系统地研究了金糠蛋白(AF)或其氯基衍生物Au(PEt3)Cl (AFCl)与模型蛋白残基之间的弱共价前相互作用。我们的研究结果揭示了每种药物不同的非共价相互作用偏好:AF对带电氨基酸残基表现出更强的亲和力,而AFCl对芳香和一些带电残基表现出明显的偏好。我们证明了这些初始的非共价相互作用诱导了电子密度的显著重新分布。这种效应改变了金中心的局部电子性质及其与不稳定配体的结合,有效地为随后的共价攻击准备了药物。然后,我们利用计算得出的几何资产在蛋白质数据库(PDB)数据库中进行全面的基序搜索,确定了10个具有显著治疗相关性的蛋白质靶点。这种生物信息学分析提供了这些金化合物如何导航其生物环境并导致目标识别的总体情况。这种与蛋白质的共价前相互作用不是一个随机的锚定过程,而是金基药物靶向附着的关键准备步骤。
{"title":"Combined computational and bioinformatic approach to uncover the pre-covalent protein interactions of auranofin and its chlorido derivative Au(PEt₃)Cl","authors":"Iogann Tolbatov ,&nbsp;Alessandro Marrone","doi":"10.1016/j.jinorgbio.2025.113161","DOIUrl":"10.1016/j.jinorgbio.2025.113161","url":null,"abstract":"<div><div>Auranofin (AF) is a clinically approved gold(I) metallodrug with recognized anti-inflammatory and anticancer properties, whose mechanism of action relies on the covalent binding at key selenoproteins and thiols causing their irreversible deactivation. While the final covalent binding event is well-documented, the initial non-covalent recognition phase that precedes it, and which likely governs the drug's selectivity, remains poorly characterized by experimental methods. To address this gap, we employed density functional theory (DFT) calculations to systematically investigate the weak, pre-covalent interactions between auranofin (AF) or its chlorido derivative, Au(PEt<sub>3</sub> <!-->)Cl (AFCl), with model protein residues. Our results reveal distinct non-covalent interactions preferences for each drug: AF shows a stronger affinity for charged amino acid residues, while AFCl exhibits a marked preference for aromatic and some charged residues. We demonstrate that these initial non-covalent interactions induce a significant redistribution of electron density. This effect alters the local electronic properties of the gold center and its bond to the labile ligand, effectively priming the drug for subsequent covalent attack. We then utilized the computationally derived geometric assets to perform a comprehensive motif search within the Protein Data Bank (PDB) database, which identified ten protein targets with significant therapeutic relevance. This bioinformatic analysis provided a general picture of how these gold compounds navigate their biological environment and led to the identification of targets. This pre-covalent interaction with protein is not a random anchoring process but a crucial preparatory step for the targeted attachment of gold-based drugs.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113161"},"PeriodicalIF":3.2,"publicationDate":"2025-11-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145617587","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Anticancer behaviour of simplified lysosome-targeted half-sandwich iridium(III) xanthate complexes towards A549 cell lines 简化溶酶体靶向半夹心铱黄药复合物对A549细胞系的抗癌行为。
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-21 DOI: 10.1016/j.jinorgbio.2025.113157
Benlian Xue, Youkun Zang, Wang Lv, Yuheng Zhang, Shuangyang Zhang, Xiaoshuang Li, Qinghua Chang, Yongjian Lu, Xicheng Liu, Zhe Liu
Although widely used clinically, the extensive nephrotoxicity and drug resistance of platinum-based metallic anticancer drugs have spurred the research and development of non‑platinum-based metallic anticancer drugs. Half-sandwich iridium(III) (IrIII) complexes have become a research hotspot in this field due to their excellent anticancer activity, structural tunability, and unique mechanism of action different from that of cisplatin. Then two half-sandwich IrIII xanthate complexes with a simple structure were prepared in this study. In vitro anti-proliferative evaluation showed that these two complexes enjoyed favorable activity towards A549 lung cancer cells in comparison to cisplatin, and could also effectively inhibit cell migration. Further research showed that Ir1 could target lysosomes (PCC: 0.85) and lead to lysosomal damage, then disturbing the cell cycle arrest (G0/G1 phase), decreasing mitochondrial membrane potential and inducing the improvement of intracellular reactive oxygen species levels. Western blotting also confirmed the existence of a lysosomal-mitochondrial apoptotic anticancer pathway. Collectively, these structurally simple yet highly active IrIII complexes provide a valuable foundation for the rational design and development of novel non‑platinum-based metallic anticancer drugs.
铂基金属抗癌药物虽然在临床上广泛应用,但其广泛的肾毒性和耐药性促使非铂基金属抗癌药物的研究和开发。半夹层铱(III) (IrIII)配合物因其优异的抗癌活性、结构可调性以及不同于顺铂的独特作用机制而成为该领域的研究热点。在此基础上制备了两种结构简单的半夹心型三烯黄药配合物。体外抗增殖评价表明,与顺铂相比,这两种复合物对A549肺癌细胞具有较好的活性,并能有效抑制细胞迁移。进一步研究表明,Ir1可靶向溶酶体(PCC: 0.85),导致溶酶体损伤,进而扰乱细胞周期阻滞(G0/G1期),降低线粒体膜电位,诱导细胞内活性氧水平升高。Western blotting也证实了溶酶体-线粒体凋亡抗癌通路的存在。总之,这些结构简单但高活性的IrIII配合物为合理设计和开发新型非铂基金属抗癌药物提供了有价值的基础。
{"title":"Anticancer behaviour of simplified lysosome-targeted half-sandwich iridium(III) xanthate complexes towards A549 cell lines","authors":"Benlian Xue,&nbsp;Youkun Zang,&nbsp;Wang Lv,&nbsp;Yuheng Zhang,&nbsp;Shuangyang Zhang,&nbsp;Xiaoshuang Li,&nbsp;Qinghua Chang,&nbsp;Yongjian Lu,&nbsp;Xicheng Liu,&nbsp;Zhe Liu","doi":"10.1016/j.jinorgbio.2025.113157","DOIUrl":"10.1016/j.jinorgbio.2025.113157","url":null,"abstract":"<div><div>Although widely used clinically, the extensive nephrotoxicity and drug resistance of platinum-based metallic anticancer drugs have spurred the research and development of non‑platinum-based metallic anticancer drugs. Half-sandwich iridium(III) (Ir<sup>III</sup>) complexes have become a research hotspot in this field due to their excellent anticancer activity, structural tunability, and unique mechanism of action different from that of cisplatin. Then two half-sandwich Ir<sup>III</sup> xanthate complexes with a simple structure were prepared in this study. In vitro anti-proliferative evaluation showed that these two complexes enjoyed favorable activity towards A549 lung cancer cells in comparison to cisplatin, and could also effectively inhibit cell migration. Further research showed that <strong>Ir1</strong> could target lysosomes (PCC: 0.85) and lead to lysosomal damage, then disturbing the cell cycle arrest (G<sub>0</sub>/G<sub>1</sub> phase), decreasing mitochondrial membrane potential and inducing the improvement of intracellular reactive oxygen species levels. Western blotting also confirmed the existence of a lysosomal-mitochondrial apoptotic anticancer pathway. Collectively, these structurally simple yet highly active Ir<sup>III</sup> complexes provide a valuable foundation for the rational design and development of novel non‑platinum-based metallic anticancer drugs.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"275 ","pages":"Article 113157"},"PeriodicalIF":3.2,"publicationDate":"2025-11-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145601625","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A general strategy for specific sensing of Sn2+ in environmental water samples and in cells 环境水样和细胞中Sn2+特异传感的一般策略
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.jinorgbio.2025.113156
Yajing Luo , Qixuan Yang , Yabing Gan , Caixia Dou , Haiyan Wang , Qiujun Lu , Guoxing Yin , Fuyou Du , Peng Yin
Sn2+ pollution poses significant risks to ecosystems and human health, necessitating the development of simple detection methods for accurate monitoring of Sn2+ dynamics. Here, we developed a conceptually distinct strategy that exploits the Sn2+-mediated reduction of organic azides rather than conventional chelation mechanism, and constructed a series of azide-based fluorescent probes (AG) operating via turn-on, ratiometric, or fluorescence resonance energy transfer modality with emissions spanning blue to near-infrared for specific sensing of Sn2+. These probes exhibit exceptional selectivity for Sn2+ over Sn4+ and other biologically relevant species, sub-micromolar detection limits (as low as 13.7 nM), fast response kinetics (t1/2 < 1 min), and full aqueous compatibility. The reduction mechanism was confirmed through radical trapping and product isolation. Probe B enabled direct quantify Sn2+ in real water samples with good recovery (93.5–103.3 %). All designed probes facilitated high-contrast in-situ imaging of Sn2+ in living cells. This work provides a robust platform for deciphering the environmental fate and biological roles of Sn2+.
Sn2+污染对生态系统和人类健康构成重大风险,需要开发简单的检测方法来准确监测Sn2+动态。在这里,我们开发了一种概念上不同的策略,利用Sn2+介导的有机叠氮化物还原而不是传统的螯合机制,并构建了一系列基于叠氮化物的荧光探针(a - g),通过开启、比例或荧光共振能量转移模式工作,发射范围从蓝色到近红外,用于特定的Sn2+传感。这些探针对Sn2+的选择性优于Sn4+和其他生物相关物质,具有亚微摩尔检测限(低至13.7 nM),快速响应动力学(t1/2 < 1 min)和完全的水相容性。通过自由基捕获和产物分离证实了还原机理。探针B能够直接定量实际水样中的Sn2+,回收率良好(93.5 - 103.3%)。所有设计的探针都可以实现活细胞中Sn2+的高对比度原位成像。这项工作为破译Sn2+的环境命运和生物学作用提供了一个强大的平台。
{"title":"A general strategy for specific sensing of Sn2+ in environmental water samples and in cells","authors":"Yajing Luo ,&nbsp;Qixuan Yang ,&nbsp;Yabing Gan ,&nbsp;Caixia Dou ,&nbsp;Haiyan Wang ,&nbsp;Qiujun Lu ,&nbsp;Guoxing Yin ,&nbsp;Fuyou Du ,&nbsp;Peng Yin","doi":"10.1016/j.jinorgbio.2025.113156","DOIUrl":"10.1016/j.jinorgbio.2025.113156","url":null,"abstract":"<div><div>Sn<sup>2+</sup> pollution poses significant risks to ecosystems and human health, necessitating the development of simple detection methods for accurate monitoring of Sn<sup>2+</sup> dynamics. Here, we developed a conceptually distinct strategy that exploits the Sn<sup>2+</sup>-mediated reduction of organic azides rather than conventional chelation mechanism, and constructed a series of azide-based fluorescent probes (<strong>A</strong>–<strong>G</strong>) operating via turn-on, ratiometric, or fluorescence resonance energy transfer modality with emissions spanning blue to near-infrared for specific sensing of Sn<sup>2+</sup>. These probes exhibit exceptional selectivity for Sn<sup>2+</sup> over Sn<sup>4+</sup> and other biologically relevant species, sub-micromolar detection limits (as low as 13.7 nM), fast response kinetics (<em>t</em><sub>1/2</sub> &lt; 1 min), and full aqueous compatibility. The reduction mechanism was confirmed through radical trapping and product isolation. Probe B enabled direct quantify Sn<sup>2+</sup> in real water samples with good recovery (93.5–103.3 %). All designed probes facilitated high-contrast in-situ imaging of Sn<sup>2+</sup> in living cells. This work provides a robust platform for deciphering the environmental fate and biological roles of Sn<sup>2+</sup>.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"275 ","pages":"Article 113156"},"PeriodicalIF":3.2,"publicationDate":"2025-11-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145569217","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A zinc (II) gentamicin metalloantibiotic with outstanding antimicrobial activity and reduced susceptibility to bacterial resistance mechanisms: Experimental and theoretical explorations 一种具有优异抗菌活性和降低细菌耐药机制的锌(II)庆大霉素金属抗生素:实验和理论探索
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.jinorgbio.2025.113153
Ivana R. Scolari, Mario A. Quevedo, Paulina L. Páez, Gladys E. Granero
This paper reports the development of a complex between the antibiotic gentamicin sulfate (GEN), consisting of four major congeners, and zinc ions (Zn(II)GEN complex). The composition of the complex aligns well with the proposed molecular formula [Zn₂+(L)(3H₂O)(2SO₄2−]. The Zn(II)GEN complex significantly enhanced inhibitory and bactericidal activity against S. aureus, E faecalis, P. aeruginosa, and E. coli. Unlike gentamicin sulfate alone, the Zn(II)-GEN complex did not induce drug-resistant mutants. Molecular modeling predicted predominantly hexacoordinated complexes involving three contact points with gentamicin and three with water, which agreed with the spectroscopic studies. The complexes adopted a restricted conformation of gentamicin, resulting in its hydrophilic groups being excluded from the solvent, which is consistent with the higher permeability. Molecular Modeling studies of the Zn(II)GEN complex with 16S RNA revealed a restricted bioactive conformation with stable interactions with residues A1493, G1494, and U1495, a structural requirement for antimicrobial activity. Free energy of binding analyses show that the Zn(II)GEN complex had better pharmacodynamic properties than the pure compound. A favored bioactive conformation formed upon the complexation of gentamicin sulfate with Zn(II) increased the complex's potency against bacteria and allowed it to penetrate bacterial cells. The complex also reduces the likelihood of antimicrobial resistance. The strategy is a good starting point for research into combating bacteria.
本文报道了由四种主要同族物组成的抗生素硫酸庆大霉素(GEN)与锌离子(Zn(II)GEN配合物)的配合物的研制。该配合物的组成与提出的分子式[Zn₂+(L)(3H₂O)(2SO₄2−]一致。Zn(II)GEN复合物显著增强了对金黄色葡萄球菌、粪肠杆菌、铜绿假单胞菌和大肠杆菌的抑制和杀菌活性。与单独使用庆大霉素不同,Zn(II)-GEN复合物不会诱导耐药突变体。分子模型预测主要是六配位配合物,包括与庆大霉素的三个接触点和与水的三个接触点,这与光谱研究一致。配合物采用庆大霉素的限制性构象,导致其亲水基团被排除在溶剂之外,这与较高的渗透性是一致的。对含有16S RNA的Zn(II)GEN配合物的分子模拟研究表明,该配合物具有有限的生物活性构象,与残基A1493、G1494和U1495具有稳定的相互作用,这是抗菌活性的结构要求。结合自由能分析表明,Zn(II)GEN配合物比纯化合物具有更好的药效学性能。硫酸庆大霉素与锌(II)络合形成的有利的生物活性构象增加了络合物对抗细菌的效力,并使其能够穿透细菌细胞。这种复合物还能降低抗菌素耐药性的可能性。这种策略是研究对抗细菌的一个很好的起点。
{"title":"A zinc (II) gentamicin metalloantibiotic with outstanding antimicrobial activity and reduced susceptibility to bacterial resistance mechanisms: Experimental and theoretical explorations","authors":"Ivana R. Scolari,&nbsp;Mario A. Quevedo,&nbsp;Paulina L. Páez,&nbsp;Gladys E. Granero","doi":"10.1016/j.jinorgbio.2025.113153","DOIUrl":"10.1016/j.jinorgbio.2025.113153","url":null,"abstract":"<div><div>This paper reports the development of a complex between the antibiotic gentamicin sulfate (GEN), consisting of four major congeners, and zinc ions (Zn(II)GEN complex). The composition of the complex aligns well with the proposed molecular formula [Zn<sup>₂+</sup>(L)(3H₂O)(2SO₄<sup>2−</sup>]. The Zn(II)GEN complex significantly enhanced inhibitory and bactericidal activity against <em>S. aureus</em>, <em>E faecalis</em>, <em>P. aeruginosa</em>, and <em>E. coli</em>. Unlike gentamicin sulfate alone, the Zn(II)-GEN complex did not induce drug-resistant mutants. Molecular modeling predicted predominantly hexacoordinated complexes involving three contact points with gentamicin and three with water, which agreed with the spectroscopic studies. The complexes adopted a restricted conformation of gentamicin, resulting in its hydrophilic groups being excluded from the solvent, which is consistent with the higher permeability. Molecular Modeling studies of the Zn(II)GEN complex with 16S RNA revealed a restricted bioactive conformation with stable interactions with residues A1493, G1494, and U1495, a structural requirement for antimicrobial activity. Free energy of binding analyses show that the Zn(<em>II</em>)GEN complex had better pharmacodynamic properties than the pure compound. A favored bioactive conformation formed upon the complexation of gentamicin sulfate with Zn(II) increased the complex's potency against bacteria and allowed it to penetrate bacterial cells. The complex also reduces the likelihood of antimicrobial resistance. The strategy is a good starting point for research into combating bacteria.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113153"},"PeriodicalIF":3.2,"publicationDate":"2025-11-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145600640","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Dehalogenation activity of a miniaturized peroxidase: substrate dependent functional switch 小型过氧化物酶的脱卤活性:底物依赖的功能开关
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-19 DOI: 10.1016/j.jinorgbio.2025.113154
Maria De Fenza , Linda Leone , Matilde Tancredi , Edelberto Oscar Niola , Ornella Maglio , Gerardino D'Errico , Flavia Nastri , Daniele D’Alonzo , Angela Lombardi
Natural peroxidases use 4-halophenols either as substrates in oxidative chemistry or as inhibitors. Herein, we demonstrated that Fe-mimochrome VI*a (Fe-MC6*a), a miniaturized heme-enzyme, is a versatile catalyst as it integrates both these features. We previously reported that Fe-MC6*a catalyzes the chemo- and regio-selective oxidation of 4-halophenols, providing either dehalogenation or oligomerization products, depending on the nature of the halogen atom. In particular, 4-chlorophenol (4-CP) and 4-fluorophenol (4-FP) selectively led to dehalogenation and oligomerization products, respectively. Herein, spin-trapping studies and EPR analysis confirm the ability of Fe-MC6*a into processing halophenols as substrates and provide mechanistic hypothesis for the chemo-divergent reaction outcome. Further, in multiple substrate competition assays, 4-halophenols act as competitive inhibitors of Fe-MC6*a-catalyzed dehalogenation of 2,4,6-trichlorophenol (TCP). Nonetheless, the catalyst retains appreciable turnover in such complex substrate mixtures. Taken together, the combination of substrate-specific selectivity and resilience to the total inhibition position Fe-MC6*a as a promising bioremediation catalyst for simultaneous halophenol detoxification in wastewater-treatment applications.
天然过氧化物酶使用4-卤素酚作为氧化化学的底物或抑制剂。在这里,我们证明了Fe-mimochrome VI*a (Fe-MC6*a),一种小型化的血红素酶,是一种多功能催化剂,因为它集成了这两种特性。我们之前报道过,Fe-MC6*a可以催化4-卤素酚的化学和区域选择性氧化,根据卤素原子的性质提供脱卤或寡聚产物。特别是,4-氯苯酚(4-CP)和4-氟苯酚(4-FP)分别选择性地导致脱卤和低聚产物。本文中,自旋捕获研究和EPR分析证实了Fe-MC6*a作为底物处理卤代酚的能力,并为化学发散反应结果提供了机制假设。此外,在多种底物竞争实验中,4 -卤代酚作为Fe-MC6*a催化2,4,6-三氯苯酚(TCP)脱卤的竞争性抑制剂。尽管如此,该催化剂在这种复杂的底物混合物中仍能保持可观的周转。综上所述,Fe-MC6*a结合了底物特异性选择性和对全抑制的弹性,使其成为一种有前景的生物修复催化剂,可在废水处理中同时解毒卤酚。
{"title":"Dehalogenation activity of a miniaturized peroxidase: substrate dependent functional switch","authors":"Maria De Fenza ,&nbsp;Linda Leone ,&nbsp;Matilde Tancredi ,&nbsp;Edelberto Oscar Niola ,&nbsp;Ornella Maglio ,&nbsp;Gerardino D'Errico ,&nbsp;Flavia Nastri ,&nbsp;Daniele D’Alonzo ,&nbsp;Angela Lombardi","doi":"10.1016/j.jinorgbio.2025.113154","DOIUrl":"10.1016/j.jinorgbio.2025.113154","url":null,"abstract":"<div><div>Natural peroxidases use 4-halophenols either as substrates in oxidative chemistry or as inhibitors. Herein, we demonstrated that Fe-mimochrome VI*a (Fe-MC6*a), a miniaturized heme-enzyme, is a versatile catalyst as it integrates both these features. We previously reported that Fe-MC6*a catalyzes the chemo- and regio-selective oxidation of 4-halophenols, providing either dehalogenation or oligomerization products, depending on the nature of the halogen atom. In particular, 4-chlorophenol (4-CP) and 4-fluorophenol (4-FP) selectively led to dehalogenation and oligomerization products, respectively. Herein, spin-trapping studies and EPR analysis confirm the ability of Fe-MC6*a into processing halophenols as substrates and provide mechanistic hypothesis for the chemo-divergent reaction outcome. Further, in multiple substrate competition assays, 4-halophenols act as competitive inhibitors of Fe-MC6*a-catalyzed dehalogenation of 2,4,6-trichlorophenol (TCP). Nonetheless, the catalyst retains appreciable turnover in such complex substrate mixtures. Taken together, the combination of substrate-specific selectivity and resilience to the total inhibition position Fe-MC6*a as a promising bioremediation catalyst for simultaneous halophenol detoxification in wastewater-treatment applications.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"276 ","pages":"Article 113154"},"PeriodicalIF":3.2,"publicationDate":"2025-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145682809","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Substrate flexibility of the catechol siderophore periplasmic binding proteins, RupB and YiuA from Yersinia ruckeri YRB 拉克氏耶尔森菌YRB中儿茶酚铁载体周质结合蛋白RupB和YiuA的底物柔韧性
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-14 DOI: 10.1016/j.jinorgbio.2025.113152
Emil Thomsen, Parker R. Stow, Maren Cukor, Alison Butler
Bacteria often produce siderophores – small molecules with high affinity for Fe(III) – to acquire the iron that they need to grow. After transport of the Fe(III)-siderophore across the outer membrane of Gram-negative bacteria, a periplasmic binding protein (PBP) generally shuttles the Fe(III)-siderophore through the periplasm to the inner membrane. The fish pathogen Yersinia ruckeri synthesizes the oligoester tris-catecholate siderophore ruckerbactin, (DHB-LArg-LSer)3 (1), to acquire iron during infection. Its biosynthetic gene cluster encodes a single PBP, RupB, which was presumed to bind Fe(III)-ruckerbactin, however, previous fluorescence quenching titrations revealed RupB does not bind Fe(III)-ruckerbactin nor the Fe(III) complexes of its hydrolysis products – the bis- and mono-catecholate siderophores, 2 and 3, respectively – with biologically relevant affinities. Instead, RupB binds the complex of the structurally-related siderophore enterobactin, (DHB-LSer)3, which is surprising since enterobactin is not biosynthesized by Y. ruckeri. RupB inverts the chirality of the Δ-Fe(III)-enterobactin to Λ upon binding. A second PBP, YiuA, which is encoded elsewhere in the genome was established previously to bind the 1:2 Fe(III) complex of the mono-catecholate DHB-LArg-LSer (3), Fe(III)-(3)2, as well as the diastereomeric complex Fe(III)-(4)2 with nanomolar affinities, in which 4 is the monocatechol DHB-DArg-LSer. We show that YiuA recognizes similar siderophore scaffolds containing the alternative cationic amino acids (Lys, Orn), suggesting a broader role in xenosiderophore uptake. YiuA binds its substrate in the Λ isomer regardless of the chirality of the complex presented to it.
细菌经常产生铁载体——一种对铁(III)具有高亲和力的小分子——来获取它们生长所需的铁。铁(III)-铁载体通过革兰氏阴性菌的外膜运输后,周围质结合蛋白(PBP)通常将铁(III)-铁载体通过周质运送到内膜。鱼类病原体拉克氏耶尔森菌在感染过程中合成低聚酯三儿茶酚铁载体拉克巴克蛋白(dhb - lang - lser)3(1)来获取铁。它的生物合成基因簇编码一个单一的PBP, RupB,它被认为可以结合Fe(III)-ruckerbactin,然而,之前的荧光猝灭测定显示,RupB不结合Fe(III)-ruckerbactin,也不结合其水解产物的Fe(III)复合物——双儿茶酚酸和单儿茶酚酸铁载体,2和3——具有生物学上相关的亲和力。相反,RupB与结构相关的铁载体肠杆菌蛋白(DHB-LSer)3的复合物结合,这是令人惊讶的,因为肠杆菌蛋白不是由洛克氏菌生物合成的。RupB在结合后将Δ-Fe(III)-enterobactin的手性反转为Λ。第二个PBP, YiuA,在基因组的其他地方编码,先前被建立结合单儿茶酚dhb - lang - lser(3)的1:2 Fe(III)复合物,Fe(III)-(3)2,以及具有纳米亲和的非对映体复合物Fe(III)-(4)2,其中4是单儿茶酚DHB-DArg-LSer。我们发现YiuA可以识别含有替代阳离子氨基酸(Lys, Orn)的类似铁载体支架,这表明在异种铁载体摄取中具有更广泛的作用。YiuA将其底物结合在Λ同分异构体中,而不考虑提供给它的配合物的手性。
{"title":"Substrate flexibility of the catechol siderophore periplasmic binding proteins, RupB and YiuA from Yersinia ruckeri YRB","authors":"Emil Thomsen,&nbsp;Parker R. Stow,&nbsp;Maren Cukor,&nbsp;Alison Butler","doi":"10.1016/j.jinorgbio.2025.113152","DOIUrl":"10.1016/j.jinorgbio.2025.113152","url":null,"abstract":"<div><div>Bacteria often produce siderophores – small molecules with high affinity for Fe(III) – to acquire the iron that they need to grow. After transport of the Fe(III)-siderophore across the outer membrane of Gram-negative bacteria, a periplasmic binding protein (PBP) generally shuttles the Fe(III)-siderophore through the periplasm to the inner membrane. The fish pathogen <em>Yersinia ruckeri</em> synthesizes the oligoester tris-catecholate siderophore ruckerbactin, (DHB-<sup>L</sup>Arg-<sup>L</sup>Ser)<sub>3</sub> (1), to acquire iron during infection. Its biosynthetic gene cluster encodes a single PBP, RupB, which was presumed to bind Fe(III)-ruckerbactin, however, previous fluorescence quenching titrations revealed RupB does not bind Fe(III)-ruckerbactin nor the Fe(III) complexes of its hydrolysis products – the bis- and mono-catecholate siderophores, 2 and 3, respectively – with biologically relevant affinities. Instead, RupB binds the complex of the structurally-related siderophore enterobactin, (DHB-<sup>L</sup>Ser)<sub>3</sub>, which is surprising since enterobactin is not biosynthesized by <em>Y. ruckeri</em>. RupB inverts the chirality of the Δ-Fe(III)-enterobactin to Λ upon binding. A second PBP, YiuA, which is encoded elsewhere in the genome was established previously to bind the 1:2 Fe(III) complex of the mono-catecholate DHB-<sup>L</sup>Arg-<sup>L</sup>Ser (3), Fe(III)-(3)<sub>2</sub>, as well as the diastereomeric complex Fe(III)-(4)<sub>2</sub> with nanomolar affinities, in which 4 is the monocatechol DHB-<sup>D</sup>Arg-<sup>L</sup>Ser. We show that YiuA recognizes similar siderophore scaffolds containing the alternative cationic amino acids (Lys, Orn), suggesting a broader role in xenosiderophore uptake. YiuA binds its substrate in the Λ isomer regardless of the chirality of the complex presented to it.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"275 ","pages":"Article 113152"},"PeriodicalIF":3.2,"publicationDate":"2025-11-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145569218","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Porphyrin secretion does not alter heme biosynthesis in the nontuberculous mycobacteria 卟啉的分泌不会改变非结核分枝杆菌中血红素的生物合成。
IF 3.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-14 DOI: 10.1016/j.jinorgbio.2025.113151
Grace Wang , Jessica Samudio , Hadia Aftab , Lily Le , Fereshteh Zandakrimi , Rebecca K. Donegan
Both Mycobacterium smegmatis and M. abscessus secrete porphyrin throughout their growth, and other species of bacteria have also been shown to secrete porphyrin with various outcomes. However, how the secretion of a heme precursor alters heme levels remains to be seen. Herein we determined that porphyrin levels and heme levels in the mycobacteria are decoupled as an increase in intracellular or extracellular porphyrin does not alter intracellular heme levels. Our findings support a model for heme biosynthesis with multiple points of regulation, further our understanding of how to alter secretion and buildup of endogenous porphyrins in the mycobacteria, and suggest that mycobacteria have a biological purpose for porphyrin secretion.
耻垢分枝杆菌和脓肿分枝杆菌在生长过程中都会分泌卟啉,其他种类的细菌也会分泌卟啉,但结果各不相同。然而,血红素前体的分泌如何改变血红素水平仍有待观察。在这里,我们确定了分支杆菌中的卟啉水平和血红素水平是分离的,因为细胞内或细胞外卟啉的增加不会改变细胞内血红素水平。我们的研究结果支持了血红素生物合成的多点调控模型,进一步了解了如何改变分枝杆菌内源性卟啉的分泌和积累,并表明分枝杆菌分泌卟啉具有生物学目的。
{"title":"Porphyrin secretion does not alter heme biosynthesis in the nontuberculous mycobacteria","authors":"Grace Wang ,&nbsp;Jessica Samudio ,&nbsp;Hadia Aftab ,&nbsp;Lily Le ,&nbsp;Fereshteh Zandakrimi ,&nbsp;Rebecca K. Donegan","doi":"10.1016/j.jinorgbio.2025.113151","DOIUrl":"10.1016/j.jinorgbio.2025.113151","url":null,"abstract":"<div><div>Both <em>Mycobacterium smegmatis</em> and <em>M. abscessus</em> secrete porphyrin throughout their growth, and other species of bacteria have also been shown to secrete porphyrin with various outcomes. However, how the secretion of a heme precursor alters heme levels remains to be seen. Herein we determined that porphyrin levels and heme levels in the mycobacteria are decoupled as an increase in intracellular or extracellular porphyrin does not alter intracellular heme levels. Our findings support a model for heme biosynthesis with multiple points of regulation, further our understanding of how to alter secretion and buildup of endogenous porphyrins in the mycobacteria, and suggest that mycobacteria have a biological purpose for porphyrin secretion.</div></div>","PeriodicalId":364,"journal":{"name":"Journal of Inorganic Biochemistry","volume":"275 ","pages":"Article 113151"},"PeriodicalIF":3.2,"publicationDate":"2025-11-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145555904","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
期刊
Journal of Inorganic Biochemistry
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1