ChemBioChem最新文献_第5页

Engineering of Amyloid Mimicking Peptide Modulating Side-Chain Polarity of Aromatic Amino Acid Residue. 调节芳香氨基酸残基侧链极性的淀粉样蛋白模拟肽工程。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-18 DOI: 10.1002/cbic.202500281

Pijush Singh, Sourav Bhowmik, Apurba K Das, Jayanta Nanda, Jishu Naskar

{"title":"Engineering of Amyloid Mimicking Peptide Modulating Side-Chain Polarity of Aromatic Amino Acid Residue.","authors":"Pijush Singh, Sourav Bhowmik, Apurba K Das, Jayanta Nanda, Jishu Naskar","doi":"10.1002/cbic.202500281","DOIUrl":"10.1002/cbic.202500281","url":null,"abstract":"Triggering higher order assembly, peptides form a number of nanoscale architectures. Self-assembly of phenylalanine homopeptides and its derivatives have been studied extensively, but the supramolecular assembly of aromatic peptides in interplay with side chain polarity is yet to be understood. Herein, the p-nitrophenylalanine, H-Phe(p-NO2)-OH, a chemically modified aromatic amino acid, has been shuffled in a highly aromatic peptide, Boc-Phe-Phe-Phe-OH (P1), which results three mutated analogs having different polarity. The morphological investigation reveals that except Boc-Phe(p-NO2)-Phe-Phe-OH (P2), all peptides aggregate into supramolecular nanofibrils in aqueous solution. The long entangled nanofibrils formed by Boc-Phe-Phe(p-NO2)-Phe-OH (P3) are able to arrest the solvent molecules leading to \"sol-to-gel\" phase transition. Interestingly, the hydrogel is mechanically robust and the gel fibrils are amyloidogenic in nature. Conformational analysis reveals the presence of cross-β arrangement of the β-strand in the gel fibrils. The rheological studies explore the thixotropic property of the self-supported hydrogel matrix. The studies establish that the supramolecular interactions can be tuned modulating the side-chain polarity of the amino acid residues. Overall, it paves a new paradigm to fabricate peptide-based biomaterials for imminent applications.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500281"},"PeriodicalIF":2.6,"publicationDate":"2025-06-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144323955","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

Cell Sensing via a Peptide/Single-Strand DNA Probe-Modified Au Screen-Printed Electrode. 通过肽/单链DNA探针修饰金丝网印刷电极的细胞传感。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-17 DOI: 10.1002/cbic.202500249

Kazuharu Sugawara, Kenta Takeda, Hideki Kuramitz

{"title":"Cell Sensing via a Peptide/Single-Strand DNA Probe-Modified Au Screen-Printed Electrode.","authors":"Kazuharu Sugawara, Kenta Takeda, Hideki Kuramitz","doi":"10.1002/cbic.202500249","DOIUrl":"10.1002/cbic.202500249","url":null,"abstract":"An electron-transfer/His-tag peptides-single-strand (ss) DNA probe is designed for the detection of cancer cells. Human myeloid leukemia cells (K562 cells) are commonly used as a model for target cancer cells. An electron-transfer peptide plays the role of a sensing moiety, and a His-tag moiety is introduced to purify the probe. A KK1B10 aptamer conjugated with the peptide sequence as an ss-DNA with target cell recognition properties is used. A probe with cysteine residue at the N-terminals is then immobilized on an Au screen-printed electrode (AuSPE). To evaluate the effect of the amino acid sequence in the probe, three types of probes are synthesized. The acetylated(Ac)-CYYCYYCH6-amino modifier C6(AmC6)KK1B10 aptamer probe proves to be a superior version. The K562 cells can interact with the probe on the electrode, and the electrode responses of the probe are decreased with increases in the concentrations of the cells. The peak currents are proportional to the concentrations of the cells and ranges from 5 to 200 cells mL with a detection limit of 2 cells/mL. The recovery 99%-102% of K562 cells in human serum and bovine blood is calculated using the probe-modified AuSPE. Consequently, the proposed method can be applied to the detection of target cells.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500249"},"PeriodicalIF":2.6,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144315568","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

Functional Characterization of a Diazo-Forming Enzyme in Meroterpenoid Biosynthesis. 一种重氮形成酶在萜类生物合成中的功能表征。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-16 DOI: 10.1002/cbic.202500377

Hartono Candra, Wan-Qiu Liu, Xuejiao Wang, Sihui Bian, Qing Wei Cheang, Jian Li, Guang-Lei Ma, Zhao-Xun Liang

{"title":"Functional Characterization of a Diazo-Forming Enzyme in Meroterpenoid Biosynthesis.","authors":"Hartono Candra, Wan-Qiu Liu, Xuejiao Wang, Sihui Bian, Qing Wei Cheang, Jian Li, Guang-Lei Ma, Zhao-Xun Liang","doi":"10.1002/cbic.202500377","DOIUrl":"10.1002/cbic.202500377","url":null,"abstract":"Meroterpenoids are known for their distinct structure and hybrid biosynthetic origin. The biosynthetic gene clusters of several well-characterized meroterpenoids contain three genes whose functions have remained elusive. Recent studies on nonmeroterpenoid pathways suggest that these genes may be involved in nitrite-dependent NN bond formation. In this study, it is shown that one of these genes, stfur5, is essential for the biosynthesis of the representative meroterpenoid furaquinocin M. By leveraging a cell-free protein synthesis platform, it is found that stFur5 catalyzes the transformation of 8-amino-flaviolin (8-AF) into diazo-flaviolin, which subsequently undergoes nonenzymatic deamination to yield the downstream intermediate flaviolin. The findings suggest that stFur5, together with the nitrite-generating enzymes stFur15 and stFur16, facilitates the deamination of 8-AF via diazotization in furaquinocin biosynthesis. We further identified the nitrite-binding pocket within stFur5 and proposed a catalytic mechanism in which nitrite is activated through adenylation. The findings enrich the understanding of the role of diazo-forming enzymes in natural product biosynthesis.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500377"},"PeriodicalIF":2.6,"publicationDate":"2025-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144300725","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

Reductant- or Light-Driven ATP-Independent Reduction of CO₂ by Nitrogenase MoFe Protein. 氮酶MoFe蛋白在还原剂或光驱动下不依赖atp的CO2还原。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-16 DOI: 10.1002/cbic.202500366

Chi Chung Lee, Yilin Hu, Markus W Ribbe

{"title":"Reductant- or Light-Driven ATP-Independent Reduction of CO2 by Nitrogenase MoFe Protein.","authors":"Chi Chung Lee, Yilin Hu, Markus W Ribbe","doi":"10.1002/cbic.202500366","DOIUrl":"10.1002/cbic.202500366","url":null,"abstract":"Nitrogenase is a versatile metalloenzyme that activates and reduces small molecules like N2, CO, and CO2 into value-added chemicals at ambient conditions. Previously, it is shown that the Mo-nitrogenase could reduce CO2 to CO, but not to hydrocarbons, in an ATP-dependent reaction. Here, it is reported that the ability of the catalytic component of Mo-nitrogenase (MoFe protein) enables ATP-independent reduction of CO2 to up to C4 hydrocarbons in room-temperature reactions driven by a chemical reductant (EuII-DTPA) or visible light (via CdS@ZnS (CZS) quantum dots). Moreover, an opposite deuterium isotope effect is observed on the EuII-DTPA driven reactions of CO2 reduction by MoFe protein and its V-counterpart (VFe protein), in that the former displays higher activities in H2O, and the latter displays higher activities in D2O. These results provide an important foundation for further mechanistic exploration of the nitrogenase-enabled, atypical Fischer-Tropsch type reaction that uses CO2 instead of CO as a substrate; moreover, they serves as a potential template for the future development of nitrogenase-based applications that effectively recycle the greenhouse gas CO2 into valuable fuel products.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500366"},"PeriodicalIF":2.6,"publicationDate":"2025-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144309341","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

A Self-Sufficient β-Methylarginine Biosynthetic Pathway in Planctomycetes. 植物中自给自足的β-甲基精氨酸生物合成途径。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-16 DOI: 10.1002/cbic.202500331

Darwin Daniel Lara, Bryan Tianzuo Zeng, Yang Hai

引用次数: 0

Robotic-Assisted Capture-Systematic Evolution of Ligands by Exponential Enrichment of RNA Aptamers Binding to Small Molecules. 机器人辅助捕获- selex RNA适体结合小分子。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-14 DOI: 10.1002/cbic.202500264

Tjasa Legen, Günter Mayer

{"title":"Robotic-Assisted Capture-Systematic Evolution of Ligands by Exponential Enrichment of RNA Aptamers Binding to Small Molecules.","authors":"Tjasa Legen, Günter Mayer","doi":"10.1002/cbic.202500264","DOIUrl":"10.1002/cbic.202500264","url":null,"abstract":"Due to their small size, stability, and cost-effectiveness compared to antibodies, aptamers developed by systematic evolution of ligands by exponential enrichment (SELEX) are promising candidates for the detection of small molecules. In SELEX, a small target molecule is usually covalently immobilized on a surface to separate bound from unbound nucleic acid sequences. However, this immobilization alters the molecule, that is, additional chemical entities are added and the electron distribution is altered, compromising the enrichment properties. To overcome this problem, a capture SELEX method has been successfully developed in which the RNA or DNA libraries are bound to a surface via a complementary oligodeoxynucleotide, and the soluble ligand is used to capture nucleic acids that bind to it from that surface. Herein, the development of an automated version of the capture SELEX method for the identification of RNA aptamers that bind small molecules is described. This method is fully automated and performs up to 12 iterative selection cycles without manual interference in 72 h. The approach is therefore suitable as rapid route to aptamers and enables resource-efficient test selections to assess \"aptamerogenicity\" of a target.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500264"},"PeriodicalIF":2.6,"publicationDate":"2025-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144293001","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

Spatiotemporal Analysis of Proteins in Single Live Cells: Methods and Applications. 单个活细胞中蛋白质的时空分析：方法和应用。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-13 DOI: 10.1002/cbic.202500336

Yanrong Wen, Fenxia Lin, Zhen Liu

引用次数: 0

Activity-Enhancing Mutations in an LmrR-Based Artificial Metalloenzyme Destabilize the Protein Scaffold and Alter its Conformational Plasticity. 基于lmrr的人工金属酶的活性增强突变破坏了蛋白质支架的稳定性并改变了其构象可塑性。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-13 DOI: 10.1002/cbic.202500259

Adil A Safeer, Fabrizio Casilli, Wouter Beugelink, Gerard Roelfes, Marc Baldus, Hugo van Ingen

{"title":"Activity-Enhancing Mutations in an LmrR-Based Artificial Metalloenzyme Destabilize the Protein Scaffold and Alter its Conformational Plasticity.","authors":"Adil A Safeer, Fabrizio Casilli, Wouter Beugelink, Gerard Roelfes, Marc Baldus, Hugo van Ingen","doi":"10.1002/cbic.202500259","DOIUrl":"10.1002/cbic.202500259","url":null,"abstract":"Artificial metalloenzymes (ArM) hold great potential for the sustainable catalysis of complex new-to-nature reactions. To efficiently improve the catalytic efficacy of ArMs, a rational approach is desirable, requiring detailed molecular insight into their conformational landscape. Lactococcal multidrug resistance regulator (LmrR) is a multipurpose ArM scaffold protein that, when bound to the Cu(II)-phenanthroline cofactor, catalyzes the Friedel-Crafts alkylation (FCA) of indoles. Previously, the M8D and A92E mutations are found to increase the efficiency of this reaction, but a molecular explanation has been lacking. The impact of these two activating mutations on the conformational landscape of LmrR in its apo, cofactor- and substrate-bound states is determined. The mutations cause a marked destabilization of the dimerization interface, resulting in a more open central hydrophobic cavity and a dynamic equilibrium between dimer and monomer LmrR is found. While mutant and wild-type have similar pocket conformation in the cofactor-bound state, the mutant shows a distinct interaction with the substrate. Our results suggest that increased retention of the catalytic cofactor and widened plasticity improve the activity of the mutant. Ultimately, these results help elucidating the intricate relationships between conformational dynamics of the protein scaffold, cofactor, and substrates that define catalytic activity.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":" ","pages":"e2500259"},"PeriodicalIF":2.6,"publicationDate":"2025-06-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144281799","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

Hybrid Crosslinking of Collagen-Mimetic Peptides for Tunable Assembly and Enhanced Biopolymer Encapsulation 模拟胶原蛋白多肽的杂交交联可调组装和增强生物聚合物封装。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-12 DOI: 10.1002/cbic.202500257

Yi-Hong Xiao, Jia-Cherng Horng

{"title":"Hybrid Crosslinking of Collagen-Mimetic Peptides for Tunable Assembly and Enhanced Biopolymer Encapsulation","authors":"Yi-Hong Xiao, Jia-Cherng Horng","doi":"10.1002/cbic.202500257","DOIUrl":"10.1002/cbic.202500257","url":null,"abstract":"Collagen, the most abundant protein in the extracellular matrix of mammals, plays a vital role in maintaining cellular structure. Collagen-mimetic peptides (CMPs), synthetic biopolymers, have emerged as promising materials for biomedical applications because of their excellent biocompatibility, biodegradability, and tunable chemical and physical properties. In this study, a series of CMPs were designed using a Pro-Pro-Gly triplet-based template, incorporating lysine residues for Lys-glutaraldehyde (Lys-GTA) crosslinking and histidine residues for metal-His coordination to facilitate CMP assembly. To modulate the morphology of the assembled structures, peptides of varying lengths were synthesized and histidine residues within the CMP sequence were strategically positioned. Scanning electron microscopy, transmission electron microscopy, and atomic force microscopy confirmed that the designed CMPs assembled into distinct spherical structures under physiological conditions. The fluorescence measurements and confocal microscopy further demonstrated that these peptide-assembled spheres can encapsulate 40 K FITC-Dextran while forming large-scale structures. In summary, an effective strategy for assembling CMPs into higher-order spherical structures is developed by integrating Lys-GTA crosslinking with metal-His coordination. Notably, these assemblies exhibited the capability to encapsulate large biomolecules, offering valuable insights for the design of collagen-based biomaterials.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":"26 14","pages":""},"PeriodicalIF":2.6,"publicationDate":"2025-06-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144281801","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

Computational De Novo Design of Group II Introns Yields Highly Active Ribozymes II族内含子的计算从头设计产生高活性核酶。

IF 2.6 4区生物学

ChemBioChem Pub Date : 2025-06-12 DOI: 10.1002/cbic.202500356

Deni Szokoli, Noemi E. Nwosu, Lukas M. Glatt, Hannes Mutschler

{"title":"Computational De Novo Design of Group II Introns Yields Highly Active Ribozymes","authors":"Deni Szokoli, Noemi E. Nwosu, Lukas M. Glatt, Hannes Mutschler","doi":"10.1002/cbic.202500356","DOIUrl":"10.1002/cbic.202500356","url":null,"abstract":"Group II introns (G2Is) are large self-splicing ribozymes with emerging potential in biotechnological applications. Despite growing interest, their complexity has so far precluded efforts to design them from scratch. While computational approaches have enabled the design of small RNA catalysts, methods for engineering large ribozymes remain underdeveloped. Herein, the RNA inverse folding algorithm aRNAque is used to design G2Is from scratch, yielding three novel self-splicing ribozymes with unusually stable structures. The designed intron Arq.I2 is revealed to be an unexpectedly proficient ribozyme in vitro, self-splicing at a rate comparable to the fastest known G2Is. While most G2Is are believed to be inactive under intracellular conditions in the absence of maturase proteins, it is shown that Arq.I2 self-splices in Escherichia coli cells. The results demonstrate that highly active variants of large and complex ribozymes can be designed de novo with relative ease using existing inverse folding algorithms, paving the way for the design of bespoke ribozymes derived from G2Is for the development of biotechnological tools.","PeriodicalId":140,"journal":{"name":"ChemBioChem","volume":"26 14","pages":""},"PeriodicalIF":2.6,"publicationDate":"2025-06-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/cbic.202500356","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144273771","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}

引用次数: 0