ArticleNature communications2026
Nucleotide flipping correlates with fluorescence activation in the RhoBAST imaging platform.
Xiaoqing Tai, Mengqi He, Christoph Mitteregger, Huiqin You, Zejia Hu, Peng Xiong, Xinyue Bao, Xin Shen, Hongcheng Li, Yu Li and 3 more
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In one paragraphArticle in Nature communications, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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13 authors.
Xiaoqing Tai *Department of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Mengqi He *Department of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Christoph Mitteregger *Institute of Organic Chemistry, Center for Molecular Biosciences Innsbruck, Leopold Franzens University, Innsbruck, Austria.
Huiqin YouDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Zejia HuDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Peng XiongSchool of Biomedical Engineering, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, Anhui, China.
Xinyue BaoDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Xin ShenDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.ORCID http://orcid.org/0009-0007-0384-2755 Hongcheng LiDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China.
Jinzhu ZhangDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China. jinzhuzhang@zju.edu.cn.
Aiming RenDepartment of Cardiology of The Second Affiliated Hospital and Life Sciences Institute and School of Medicine and Liangzhu Laboratory, Zhejiang University, Hangzhou, China. aimingren@zju.edu.cn.ORCID http://orcid.org/0000-0002-5420-4899 Funding
Austrian Science Fund (Fonds zur Förderung der Wissenschaftlichen Forschung) F8011-B to R.M., 10.55776/F80National Natural Science Foundation of China (National Science Foundation of China) 32325029Natural Science Foundation of Zhejiang Province (Zhejiang Provincial Natural Science Foundation) LD25C050002
6 · The paper itselfAbstract
Super-resolution imaging with RhoBAST fluorogenic RNA aptamer sheds new light on decoding RNA dynamics with high spatiotemporal resolution. To uncover the molecular basis underlying its exceptional photophysical properties, we determined the first free-form structure of RhoBAST, along with its ligand-bound complexes with TMR-DN and related analogs. RhoBAST adopts an inverted 'V'-shaped architecture, with the fluorophore accommodated between the J2/3 and L3 loops. Comparative structural analyses reveal that nucleotide G38 undergoes a pronounced conformational transition-from an inward-facing to an outward-flipped orientation-upon ligand binding. Structure-guided mutagenesis and complementary biophysical assays, including fluorescence spectroscopy, surface plasmon resonance, and 2-aminopurine kinetics, establish that this dynamic nucleotide flipping facilitates rapid ligand turnover and fluorescence flickering, the hallmark of super-resolution imaging. These findings uncover a previously unrecognized nucleotide-flipping mechanism in a fluorogenic RNA aptamer, providing a structural and mechanistic blueprint for the rational design of next-generation super-resolution RNA imaging tools.
Indexed as
Aptamers, NucleotideNucleotides2-AminopurineFluorescenceFluorescent DyesLigandsModels, MolecularNucleic Acid ConformationRNASpectrometry, FluorescenceSurface Plasmon Resonance2-AminopurineAptamers, NucleotideFluorescent DyesLigandsNucleotidesRNA
Identifiers
PMID42481497
PMCPMC13503906
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