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Published on: July 9, 2021
Molecular dynamics study of ways of RNA base-pair formation
Qiangqiang Duan1, Peng Tao1, Jun Wang1
1School of Physics, Huazhong University of Science and Technology, Wuhan 430074, Hubei, China.
Abstract:
Base pairing is a fundamental phenomenon in RNA structure and function. However, although there have been considerable recent advances, some important aspects of base-pair formation are still unknown, including the ways of base-pair formation and detailed roles of metal ions. Here we show that base pairs can form through four different ways: stabilizing, bridging, rotating, and shifting. Among them the stabilizing and bridging ways involve direct binding of metal ions while the rotating and shifting ways do not in most cases. Furthermore, we find that the formations of base pairs in different positions of the hairpin stem may adopt different ways.
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