Nearest-neighbor parameters for predicting DNA duplex stability in diverse molecular crowding conditions
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- Saptarshi Ghosh
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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- Shuntaro Takahashi
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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- Tatsuya Ohyama
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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- Tamaki Endoh
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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- Hisae Tateishi-Karimata
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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- Naoki Sugimoto
- Frontier Institute for Biomolecular Engineering Research, Konan University, 650-0047 Kobe, Japan;
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説明
<jats:title>Significance</jats:title> <jats:p>The intracellular environment is occupied by a high concentration of various types of biomolecules that lead to a situation known as molecular crowding, which affects important biological reactions such as replication and transcription by altering the stability of nucleic acids. Because intracellular crowded conditions are heterogeneous, a general method is needed to predict the stability of nucleic acids in such conditions. Here, we predicted the stability of DNA duplexes under crowded conditions induced by a large amount of a cosolute at a physiological salt concentration using the nearest-neighbor model. We also extended the parameters for predicting DNA stability under conditions imposed by different cosolutes that mimicked a localized intracellular crowded region.</jats:p>
収録刊行物
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- Proceedings of the National Academy of Sciences
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Proceedings of the National Academy of Sciences 117 (25), 14194-14201, 2020-06-10
Proceedings of the National Academy of Sciences
