Sumon Pratihar, Vasudhar Bhat S V, Krithi K Bhagavath, Thimmaiah Govindaraju
{"title":"Unambiguous Detection of LTR-III G-Quadruplex in the HIV Genome Using a Tailored Fluorogenic Probe-based Assay.","authors":"Sumon Pratihar, Vasudhar Bhat S V, Krithi K Bhagavath, Thimmaiah Govindaraju","doi":"10.1021/acs.analchem.4c03374","DOIUrl":"https://doi.org/10.1021/acs.analchem.4c03374","url":null,"abstract":"<p><p>The noncanonical conformations within the genomes of viral pathogens is of significant diagnostic value, due to their unique secondary structures and interactions with specific fluorogenic molecules. In particular, adaptation of the G-quadruplex (GQ) conformation by the specific gene sequence leads to distinct topological features, resulting in unique binding sites that are crucial for the selective recognition of human immunodeficiency virus (HIV) by small molecules. Leveraging the selective fluorescence response of a benzobisthiazole-based fluorogenic probe to the LTR-III GQ target, we developed a GQ-based diagnostic platform for HIV detection. The successful fluorescence recognition of an amplified 176-nucleotide genomic segment harboring the LTR-III GQ, facilitated by pH-controlled GQ-targeted reliable conformational polymorphism (GQ-RCP), validates this method as an effective GQ-topology-targeted diagnostic tool for HIV.</p>","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":null,"pages":null},"PeriodicalIF":6.7,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306552","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Xujian Wang, Haodong Liu, Jingyao Wang, Le Chang, Jiayang Cai, Zexuan Wei, Jiayu Pan, Xiaohui Gu, Wan-Lu Li, Jiahuang Li
{"title":"Enzyme Tunnel Dynamics and Catalytic Mechanism of Norcoclaurine Synthase: Insights from a Combined LiGaMD and DFT Study.","authors":"Xujian Wang, Haodong Liu, Jingyao Wang, Le Chang, Jiayang Cai, Zexuan Wei, Jiayu Pan, Xiaohui Gu, Wan-Lu Li, Jiahuang Li","doi":"10.1021/acs.jpcb.4c04243","DOIUrl":"https://doi.org/10.1021/acs.jpcb.4c04243","url":null,"abstract":"<p><p>This study conducts a systematic investigation into the catalytic mechanism of norcoclaurine synthase (NCS), a key enzyme in the biosynthesis of tetrahydroisoquinolines (THIQs) with therapeutic applications. By integration of LiGaMD and DFT calculations, the reaction pathway of NCS is mapped, providing detailed insights into its catalytic activity and selectivity. Our findings underscore the critical role of E103 in substrate capture and reveal the hitherto unappreciated influence of nonpolar residues M183 and L76 on tunnel dynamics. A prominent discovery is the identification of a high-energy barrier (44.2 kcal/mol) associated with the aromatic electrophilic attack, which pinpoints the rate-limiting step. Moreover, we disclose the existence of dual transition states leading to different products with the energetically favored six-membered ring formation consistent with experimental evidence. These mechanistic revelations not only refine our understanding of NCS but also advocate for a renewed emphasis on enzyme tunnel engineering for optimizing THIQs biosynthesis. The research sets the stage for translating these findings into practical enzyme modifications. Our results highlight the potential of NCS as a biocatalyst to overcome the limitations of current synthetic methodologies, such as low yields and environmental impacts, and provide a theoretical contribution to the efficient, eco-friendly production of THIQs-based pharmaceuticals.</p>","PeriodicalId":60,"journal":{"name":"The Journal of Physical Chemistry B","volume":null,"pages":null},"PeriodicalIF":2.8,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306639","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}
Organic LettersPub Date : 2024-09-24DOI: 10.1021/acs.orglett.4c03175
Ling Li, Shi-Qi Zhang, Xin Cui, Gang Zhao, Zhuo Tang, Guang-Xun Li
{"title":"Catalytic Asymmetric Hydrogen Atom Transfer Based on a Chiral Hydrogen Atom Donor Generated from TBADT and Chiral BINOL.","authors":"Ling Li, Shi-Qi Zhang, Xin Cui, Gang Zhao, Zhuo Tang, Guang-Xun Li","doi":"10.1021/acs.orglett.4c03175","DOIUrl":"https://doi.org/10.1021/acs.orglett.4c03175","url":null,"abstract":"<p><p>Enantioselective radical reactions mediated by TBADT have seldom been seen due to the inherent challenges. Herein, we disclose a new chiral hydrogen atom transfer (HAT) reagent that was generated easily from 8<i>H</i>-BINOL, potassium carbonate, and TBADT under irradiation. The new complex 8<i>H</i>-BINOL/DTs could be used as a chiral H donor. A series of azaarenes could be converted into the corresponding chiral compounds via radical addition followed by enantioselective HAT.</p>","PeriodicalId":54,"journal":{"name":"Organic Letters","volume":null,"pages":null},"PeriodicalIF":4.9,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306623","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"An Ultrasensitive Bi<sub>2</sub>O<sub>2</sub>Se/In<sub>2</sub>S<sub>3</sub> Photodetector with Low Detection Limit and Fast Response toward High-Precision Unmanned Driving.","authors":"Meifei Chen, Xiqiang Chen, Ziqiao Wu, Zihao Huang, Wei Gao, Mengmeng Yang, Ye Xiao, Yu Zhao, Zhaoqiang Zheng, Jiandong Yao, Jingbo Li","doi":"10.1021/acsnano.4c08636","DOIUrl":"https://doi.org/10.1021/acsnano.4c08636","url":null,"abstract":"<p><p>The machine vision utilized in unmanned driving systems must possess the ability to accurately perceive scenes under low-light illumination conditions. To achieve this, photodetectors with low detection limits and a fast response are essential. Current systems rely on avalanche diodes or lidars, which come with the drawbacks of increased energy consumption and complexity. Here, we present an ultrasensitive photodetector based on a two-dimensional (2D) Bi<sub>2</sub>O<sub>2</sub>Se/In<sub>2</sub>S<sub>3</sub> heterostructure, incorporating a homotype unilateral depletion band design. This innovative architecture effectively modulates the transport of both free and photoexcited carriers, suppressing the dark current and facilitating the rapid and efficient separation of photocarriers. Owing to these features, this device exhibits a responsivity of 144 A/W, a specific detectivity of 1.2 × 10<sup>14</sup> Jones, and a light on/off ratio of 1.1 × 10<sup>5</sup>. These metrics rank among the top values reported for state-of-the-art 2D devices. Moreover, this device also demonstrates a fast response time of 170/296 μs and a low noise equivalent power of 0.57 fW/Hz<sup>1/2</sup>, attributes that endow it with ultraweak light imaging capabilities. Furthermore, we have successfully integrated this device into an unmanned driving system, providing a perspective on the design and fabrication of future optoelectronic devices.</p>","PeriodicalId":21,"journal":{"name":"ACS Nano","volume":null,"pages":null},"PeriodicalIF":15.8,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306526","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"A DNA Molecular Logic Circuit for Precise Tumor Identification.","authors":"Yingyu Sima, Lili Ai, Linlin Wang, Pengge Zhang, Qiang Zhang, Shanchao Wu, Sitao Xie, Zilong Zhao, Weihong Tan","doi":"10.1021/acs.nanolett.4c02342","DOIUrl":"https://doi.org/10.1021/acs.nanolett.4c02342","url":null,"abstract":"<p><p>Tumor-associated antigens (TAAs) are not exclusively expressed in cancer cells, inevitably causing the \"on target, off tumor\" effect of molecular recognition tools. To achieve precise recognition of cancer cells, by using protein tyrosine kinase 7 (PTK7) as a model TAA, a DNA molecular logic circuit Aisgc8 was rationally developed by arranging H<sup>+</sup>-binding i-motif, ATP-binding aptamer, and PTK7-targeting aptamer Sgc8c in a DNA sequence. Aisgc8 output the conformation of Sgc8c to recognize PTK7 on cells in a simulated tumor microenvironment characterized by weak acidity and abundant ATP, but not in a simulated physiological environment. Through <i>in vitro</i> and <i>in vivo</i> results, Aisgc8 demonstrated its ability to precisely recognize cancer cells and, as a result, displayed excellent performance in tumor imaging. Thus, our studies produced a simple and efficient strategy to construct DNA logic circuits, opening new possibilities to develop convenient and intelligent precision diagnostics by using DNA logic circuits.</p>","PeriodicalId":53,"journal":{"name":"Nano Letters","volume":null,"pages":null},"PeriodicalIF":9.6,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306607","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Pickering Emulsion Promoted Interfacial Sequential Chemo-Biocatalytic Reaction for the Synthesis of Chiral Alcohols from Styrene.","authors":"Weiqi Wang, Yuting Yu, Mengyao Wang, Yangxin Wang, Shanqiu Liu, Jian Xu, Zhiyong Sun","doi":"10.1021/acsami.4c10461","DOIUrl":"https://doi.org/10.1021/acsami.4c10461","url":null,"abstract":"<p><p>Chemo-biocatalytic cascades have emerged as a promising approach in the realm of advanced synthesis. However, reconciling the incompatible reaction conditions among distinct catalytic species presents a significant challenge. Herein, we introduce an innovative solution using an emulsion system stabilized by Janus silica nanoparticles, which serve as a bridge for both chemo-catalysts and biocatalysts at the interface. The chemo-catalyst is securely anchored within a hydrophobic polymer matrix, ensuring its residence in an organic environment. Meanwhile, the negatively charged <i>E. coli</i> cells containing enzymes are attracted to the aqueous phase at the interface, facilitating their optimal positioning. We demonstrate the efficacy of this system through a two-step cascade reaction. Initially, the oxidation of styrene to acetophenone using palladium as a chemocatalyst achieves a 6-fold increase in yield compared to the control system. Subsequently, the reduction of achiral acetophenone to its chiral alcohol derivative presents a 17-fold yield enhancement relative to that of the control reaction. Importantly, our system exhibits versatility, accommodating a wide range of substrates for both individual and sequential reactions. This work not only validates the concept but also paves the way for the integration of chemo- and biocatalysts in the synthesis of a broader array of high-value chemical compounds.</p>","PeriodicalId":5,"journal":{"name":"ACS Applied Materials & Interfaces","volume":null,"pages":null},"PeriodicalIF":8.3,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306545","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Yanan Gao, Akalabya Bissoyi, Qiongyu Guo, Matthew I Gibson
{"title":"Induced Extracellular Ice Nucleation Protects Cocultured Spheroid Interior and Exterior during Cryopreservation.","authors":"Yanan Gao, Akalabya Bissoyi, Qiongyu Guo, Matthew I Gibson","doi":"10.1021/acsbiomaterials.4c00958","DOIUrl":"https://doi.org/10.1021/acsbiomaterials.4c00958","url":null,"abstract":"<p><p>Spheroids and other 3D cellular models more accurately recapitulate physiological responses when compared to 2D models and represent potential alternatives to animal testing. The cryopreservation of spheroids remains challenging, limiting their wider use. Standard DMSO-only cryopreservation results in supercooling to low subzero temperatures, reducing viability, shedding surface cells, and perforating spheroid interiors. Here, cocultured spheroids with differentially labeled outer cell layers allow spatial evaluation of the protective effect of macromolecular ice nucleators by microscopy and histology. Extracellular nucleation is shown to reduce damage to both interior and exterior regions of the spheroids, which will support the development of \"off-the-shelf\" 3D models.</p>","PeriodicalId":8,"journal":{"name":"ACS Biomaterials Science & Engineering","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306508","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The Next Twenty Years of the Journal of Chemical Theory and Computation","authors":"Qiang Cui, Marco De Vivo and Laura Gagliardi*, ","doi":"10.1021/acs.jctc.4c0106710.1021/acs.jctc.4c01067","DOIUrl":"https://doi.org/10.1021/acs.jctc.4c01067https://doi.org/10.1021/acs.jctc.4c01067","url":null,"abstract":"","PeriodicalId":45,"journal":{"name":"Journal of Chemical Theory and Computation","volume":null,"pages":null},"PeriodicalIF":5.7,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142310120","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Jinwoo Ho, Woochan Kim, Daeyoung Kim, Sang Kug Chung, Sungjoon Lim
{"title":"Foldable Metamaterial Absorber with Liquid Metal Printing on Paper.","authors":"Jinwoo Ho, Woochan Kim, Daeyoung Kim, Sang Kug Chung, Sungjoon Lim","doi":"10.1021/acsami.4c12021","DOIUrl":"https://doi.org/10.1021/acsami.4c12021","url":null,"abstract":"<p><p>Metamaterials, characterized by their unique artificial periodic structures, exhibit extraordinary abilities in controlling electromagnetic waves not found in natural materials. Metamaterial absorbers, for example, have been developed by patterning solid conductive materials on dielectric surfaces. However, the foldability limitations of solid conductors make them unsuitable as foldable metamaterial absorbers since they lose those desirable properties when folded. To address this challenge, various methods using liquid metals have emerged, but they either require often necessitate structural frames or are primarily suited for hard surfaces, limiting their foldability potential. This study proposes an innovative solution involving the deposition of liquid metal onto paper surfaces to overcome foldability constraints. We design a metamaterial absorber with a circular pattern using three sheets of printing paper bonded with a film, leveraging these adhesive properties of oxidized gallium-based liquid metal to waterproof agent coated printing paper while preventing adhesion to laser-printed toner surfaces. The experimental results show that this absorber achieves an absorption rate of more than 90% in the frequency range of 10.36-10.76 GHz while being insensitive to polarization and incidence angle. Surprisingly, our proposed absorber retains its excellent performance even after being folded and unfolded up to 50 times. This foldable metamaterial absorber made of liquid metal is a promising solution for electromagnetic wave management applications requiring flexibility and adaptability.</p>","PeriodicalId":5,"journal":{"name":"ACS Applied Materials & Interfaces","volume":null,"pages":null},"PeriodicalIF":8.3,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306523","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Toughness and Thermoresponsive Hydrogel for Sandwich Smart Window with Adaptive Solar Modulation and Energy Saving.","authors":"Huijie Guan, Yinghan Lu, Yijiang You, Shengxiang Gao, Li Liu, Guangfeng Wu","doi":"10.1021/acsami.4c13133","DOIUrl":"https://doi.org/10.1021/acsami.4c13133","url":null,"abstract":"<p><p>Thermochromic hydrogels with self-regulating solar transmittance are gaining increasing attention due to their significant potential in the fields of smart windows and energy conservation. Smart windows incorporating viscosity-tough hydrogels as an interlayer exhibit enhanced advantages in resisting external forces. In this study, a tough and thermoresponsive composite hydrogel was developed by incorporating poly(<i>N</i>-isopropylacrylamide) nanoparticles (PNIPAM NPs) and W-doped VO<sub>2</sub> into a polyacrylamide-agar (PAM-Agar) double network hydrogel. Upon solar irradiation, thermochromism of PNIPAM NPs could regulate the visible light transmittance of the composite hydrogel and the photothermal effect of W-VO<sub>2</sub> contributes to the optical regulation and NIR shielding. The smart window, with the composite hydrogel as an interlayer, demonstrates excellent optical modulation capabilities, with a luminous transmittance (<i>T</i><sub><i>um</i></sub>(20 °C)) of 86.81%, high light modulation (Δ<i>T</i><sub><i>um</i></sub> = 78.89%), a high solar modulation (<i>T</i><sub><i>sol</i></sub>) of 83.59%, and a lower critical solution temperature (LCST) of 32.6 °C. The composite hydrogel's superior toughness (0.215 MJ/m<sup>3</sup>) also enhances the impact resistance of the smart window glass. Additionally, the adhesion between the hydrogel and the glass, with a maximum peeling force of up to 151 N/m (attributed to interactions between the amide groups and the silicon hydroxyl groups), was confirmed through a falling ball experiment. Moreover, the hydrogel exhibits a certain degree of thermal insulation, further promoting its utility in energy-saving applications. In conclusion, this study highlights the significant potential of such composite hydrogels in the development of smart windows for energy-efficient buildings.</p>","PeriodicalId":5,"journal":{"name":"ACS Applied Materials & Interfaces","volume":null,"pages":null},"PeriodicalIF":8.3,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142306505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"材料科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}