Aptamer–Protein Interactions: From Regulation to Biomolecular Detection

Ji, Cailing; Wei, Junyuan; Zhang, Lei; Hou, Xinru; Tan, Jie; Yuan, Quan; Tan, Weihong

doi:10.1021/acs.chemrev.3c00377

Cited by 25 publications

(5 citation statements)

References 445 publications

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“…In general, the different protein-aptamer interactions inspired numerous analytical detection assays, each based on the regulation of a specific binding force [125].…”

Section: Characterization Of the Interfaces That Stabilize Protein-ap...mentioning

confidence: 99%

Structural Insights into Protein–Aptamer Recognitions Emerged from Experimental and Computational Studies

Troisi,

Balasco,

Autiero

et al. 2023

IJMS

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Aptamers are synthetic nucleic acids that are developed to target with high affinity and specificity chemical entities ranging from single ions to macromolecules and present a wide range of chemical and physical properties. Their ability to selectively bind proteins has made these compounds very attractive and versatile tools, in both basic and applied sciences, to such an extent that they are considered an appealing alternative to antibodies. Here, by exhaustively surveying the content of the Protein Data Bank (PDB), we review the structural aspects of the protein–aptamer recognition process. As a result of three decades of structural studies, we identified 144 PDB entries containing atomic-level information on protein–aptamer complexes. Interestingly, we found a remarkable increase in the number of determined structures in the last two years as a consequence of the effective application of the cryo-electron microscopy technique to these systems. In the present paper, particular attention is devoted to the articulated architectures that protein–aptamer complexes may exhibit. Moreover, the molecular mechanism of the binding process was analyzed by collecting all available information on the structural transitions that aptamers undergo, from their protein-unbound to the protein-bound state. The contribution of computational approaches in this area is also highlighted.

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“…In general, the different protein-aptamer interactions inspired numerous analytical detection assays, each based on the regulation of a specific binding force [125].…”

Section: Characterization Of the Interfaces That Stabilize Protein-ap...mentioning

confidence: 99%

Structural Insights into Protein–Aptamer Recognitions Emerged from Experimental and Computational Studies

Troisi,

Balasco,

Autiero

et al. 2023

IJMS

View full text Add to dashboard Cite

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“…Nucleic Apts are a promising tool for specific targeting owing to their strong affinities and selectivity for target molecules [ 95 ]. The EVs' surface can be modified with nucleic Apts to improve their ability to target cells and increase the effectiveness of medication delivery [ 96 , 97 ].…”

Section: Surface Modification Of Evsmentioning

confidence: 99%

Engineered extracellular vesicles: A new approach for targeted therapy of tumors and overcoming drug resistance

Ming‐Kun,

Zi‐Xian,

Mao‐Ping

et al. 2023

Cancer Communications

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Targeted delivery of anti‐tumor drugs and overcoming drug resistance in malignant tumor cells remain significant clinical challenges. However, there are only few effective methods to address these issues. Extracellular vesicles (EVs), actively secreted by cells, play a crucial role in intercellular information transmission and cargo transportation. Recent studies have demonstrated that engineered EVs can serve as drug delivery carriers and showed promising application prospects. Nevertheless, there is an urgent need for further improvements in the isolation and purification of EVs, surface modification techniques, drug assembly processes, and precise recognition of tumor cells for targeted drug delivery purposes. In this review, we summarize the applications of engineered EVs in cancer treatment and overcoming drug resistance, and current challenges associated with engineered EVs are also discussed. This review aims to provide new insights and potential directions for utilizing engineered EVs as targeted delivery systems for anti‐tumor drugs and overcoming drug resistance in the near future.

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“…With the development of DNA nanotechnology, aptamer-functionalized DNA nanostructures have received more and more attention. These structures enable them to bind to particular targets with exceptional selectivity and high affinity, thereby playing a pivotal role in molecular recognition . Zhu et al designed an aptamer-tethered DNA nanotrain .…”

Section: Introductionmentioning

confidence: 99%

Intelligent Biogenic Missile for Two-Photon Fluorescence Imaging-Guided Combined Photodynamic Therapy and Chemotherapy in Tumors

Qian,

He,

Feng

et al. 2024

Anal. Chem.

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Photodynamic therapy (PDT) is a significant noninvasive therapeutic modality, but it is often limited in its application due to the restricted tissue penetration depth caused by the wavelength limitations of the light source. Two-photon (TP) fluorescence techniques are capable of having an excitation wavelength in the NIR region by absorbing two NIR photons simultaneously, which offers the potential to achieve higher spatial resolution for deep tissue imaging. Thus, the adoption of TP fluorescence techniques affords several discernible benefits for photodynamic therapy. Organic TP dyes possess a high fluorescence quantum yield. However, the biocompatibility of organic TP dyes is poor, and the method of coating organic TP dyes with silica can effectively overcome the limitations. Herein, based on the TP silica nanoparticles, a functionalized intelligent biogenic missile TP-SiNPs-G4 (TMPyP4) -dsDNA (DOX) -Aptamer (TG T D D A) was developed for effective TP bioimaging and synergistic targeted photodynamic therapy and chemotherapy in tumors. First, the Sgc8 aptamer was used to target the PTK7 receptor on the surface of tumor cells. Under two-photon light irradiation, the intelligent biogenic missile can be activated for TP fluorescence imaging to identify tumor cells and the photosensitizer assembled on the nanoparticle surface can be activated for photodynamic therapy. Additionally, this intelligent biogenic missile enables the controlled release of doxorubicin (DOX). The innovative strategy substantially enhances the targeted therapeutic effectiveness of cancer cells. The intelligent biogenic missile provides an effective method for the early detection and treatment of tumors, which has a good application prospect in the real-time high-sensitivity diagnosis and treatment of tumors.

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Aptamer–Protein Interactions: From Regulation to Biomolecular Detection

Cited by 25 publications

References 445 publications

Structural Insights into Protein–Aptamer Recognitions Emerged from Experimental and Computational Studies

Structural Insights into Protein–Aptamer Recognitions Emerged from Experimental and Computational Studies

Engineered extracellular vesicles: A new approach for targeted therapy of tumors and overcoming drug resistance

Intelligent Biogenic Missile for Two-Photon Fluorescence Imaging-Guided Combined Photodynamic Therapy and Chemotherapy in Tumors

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