化学
DNA
碱基对
生物物理学
互补性(分子生物学)
合理设计
单股
流离失所(心理学)
分支迁移
DNA纳米技术
生物系统
纳米技术
遗传学
生物
生物化学
材料科学
DNA修复
霍利迪路口
心理治疗师
心理学
作者
Patrick Irmisch,Thomas E. Ouldridge,Ralf Seidel
摘要
Toehold-mediated strand displacement is the most abundantly used method to achieve dynamic switching in DNA-based nanotechnology. An “invader” strand binds to the “toehold” overhang of a target strand and replaces a target-bound “incumbent” strand. Here, the complementarity of the invader to the single-stranded toehold provides the free energy bias of the reaction. Despite the widespread use of strand displacement reactions for realizing dynamic DNA nanostructures, variants on the basic motif have not been completely characterized. Here we introduce a simple thermodynamic model, which is capable of quantitatively describing the kinetics of strand displacement reactions in the presence of mismatches, using a minimal set of parameters. Furthermore, our model highlights that base pair fraying and internal loop formation are important mechanisms when involving mismatches in the displacement process. Our model should provide a helpful tool for the rational design of strand-displacement reaction networks.
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