Luca Bertini, Valeria Libera, Sara Catalini, Giorgio Schirò, Andrea Orecchini, Renzo Campanella, Valentina Arciuolo, Bruno Pagano, Caterina Petrillo, Cristiano De Michele, Lucia Comez, Alessandro Paciaroni
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引用次数: 0
摘要
端粒 G-四联体(G4s)是由 TTAGGGG 重复序列组成的非经典 DNA 结构。它们既是基因组稳定的关键生物分子,也是合成生物学和纳米技术中很有前景的构件和功能元素,因此被广泛研究。因此,了解 G4 之间的相互作用如何受到其拓扑结构的影响极为重要。我们利用小角 X 射线散射研究了由 AG3(T2AG3)3 序列形成的反平行端粒 G-四重体的端到端堆叠。 为了表示实验数据,我们开发了一种高效的粗粒度拟合工具,它成功地将样品描述为单体和二聚体 G4 物种的平衡混合物。我们的研究结果表明,与相同 DNA 序列形成的混合/平行结构不同,反平行拓扑结构可防止在自拥挤条件下形成长的多聚体结构。这一结果支持了这样一种观点,即单体 G-四重链的堆叠会受到对角环存在的强烈影响。
Hindered intermolecular stacking of anti-parallel telomeric G-quadruplexes.
Telomeric G-quadruplexes (G4s) are non-canonical DNA structures composed of TTAGGG repeats. They are extensively studied both as biomolecules key for genome stability and as promising building blocks and functional elements in synthetic biology and nanotechnology. This is why it is extremely important to understand how the interaction between G4s is affected by their topology. We used small-angle x-ray scattering to investigate the end-to-end stacking of antiparallel telomeric G-quadruplexes formed by the sequence AG3(T2AG3)3. To represent the experimental data, we developed a highly efficient coarse-grained fitting tool, which successfully described the samples as an equilibrium mixture of monomeric and dimeric G4 species. Our findings indicate that the antiparallel topology prevents the formation of long multimeric structures under self-crowding conditions, unlike the hybrid/parallel structures formed by the same DNA sequence. This result supports the idea that the stacking of monomeric G-quadruplexes is strongly affected by the presence of diagonal loops.
期刊介绍:
The Journal of Chemical Physics publishes quantitative and rigorous science of long-lasting value in methods and applications of chemical physics. The Journal also publishes brief Communications of significant new findings, Perspectives on the latest advances in the field, and Special Topic issues. The Journal focuses on innovative research in experimental and theoretical areas of chemical physics, including spectroscopy, dynamics, kinetics, statistical mechanics, and quantum mechanics. In addition, topical areas such as polymers, soft matter, materials, surfaces/interfaces, and systems of biological relevance are of increasing importance.
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Theoretical Methods and Algorithms
Advanced Experimental Techniques
Atoms, Molecules, and Clusters
Liquids, Glasses, and Crystals
Surfaces, Interfaces, and Materials
Polymers and Soft Matter
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