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Record Resolution of Nanometal Surface Energy Transfer Optical Nanoruler Projects 3D Spatial Configuration of Aptamers on a Living Cell Membrane
Nano Letters ( IF 9.6 ) Pub Date : 2023-12-07 , DOI: 10.1021/acs.nanolett.3c04322
Yu Zhang 1 , Xingru Fang 1 , Wenwen Huang 1 , Qi Li 1 , Fan Hu 1 , Honglin Liu 1
Affiliation  

Decrypting the in situ three-dimensional spatial configuration of an aptamer is of considerable significance; however, suitable nanoscale resolution tools are lacking. Herein, we show that a new nanometal surface energy transfer (NSET) optical nanoruler has a record resolution, down to single-nucleobase levels. We labeled fluorophores on different T bases of XQ-2d, including 5′, 3′, 6T, 22T, 38T, and 52T positions. The NSET nanoruler in situ decrypted the base sequence-dependent distance projection on the nanogold surface, demonstrating that 5′, 3′, stem, and loop structures are symmetrical in three-dimensional spatial configuration. The orientation of the 5′ and 3′ stem was toward the antiCD71-binding site, whereas the loop was in the opposite direction at a considerable distance. Molecular docking simulation was performed to list all of the possible conformations; however, all base distance parameters projecting on the nanogold surface determined a single conformation of XQ-2d. The specific binding sites of XQ-2d were Lys477, Ser691, and Arg698 on the CD71 receptor.

中文翻译:


纳米金属表面能量转移的记录分辨率光学纳米尺投影活细胞膜上适体的 3D 空间配置



解密适配体原位三维空间构型具有重要意义;然而,缺乏合适的纳米级分辨率工具。在此,我们证明了一种新型纳米金属表面能量转移(NSET)光学纳米尺具有创纪录的分辨率,低至单核碱基水平。我们在 XQ-2d 的不同 T 碱基上标记了荧光团,包括 5'、3'、6T、22T、38T 和 52T 位置。 NSET纳米尺原位解密了纳米金表面上依赖于碱基序列的距离投影,证明5'、3'、茎和环结构在三维空间配置中是对称的。 5'和3'茎的方向朝向抗CD71结合位点,而环则在相当远的距离处处于相反方向。进行分子对接模拟,列出所有可能的构象;然而,投影在纳米金表面上的所有碱基距离参数决定了 XQ-2d 的单一构象。 XQ-2d的特异性结合位点是CD71受体上的Lys477、Ser691和Arg698。
更新日期:2023-12-07
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