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Dai YX, Duan XL, Fu WT, Wang S, Liu NN, Li HH, Ai X, Guo HL, Navés CA, Bugnard E, Auguin D, Hou XM, Rety S, Xi XG. Stimulation of ATP Hydrolysis by ssDNA Provides the Necessary Mechanochemical Energy for G4 Unfolding. J Mol Biol 2024; 436:168373. [PMID: 37992890 DOI: 10.1016/j.jmb.2023.168373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2023] [Revised: 11/14/2023] [Accepted: 11/15/2023] [Indexed: 11/24/2023]
Abstract
The G-quadruplex (G4) is a distinct geometric and electrophysical structure compared to classical double-stranded DNA, and its stability can impede essential cellular processes such as replication, transcription, and translation. This study focuses on the BsPif1 helicase, revealing its ability to bind independently to both single-stranded DNA (ssDNA) and G4 structures. The unfolding activity of BsPif1 on G4 relies on the presence of a single tail chain, and the covalent continuity between the single tail chain and the G4's main chain is necessary for efficient G4 unwinding. This suggests that ATP hydrolysis-driven ssDNA translocation exerts a pull force on G4 unwinding. Molecular dynamics simulations identified a specific region within BsPif1 that contains five crucial amino acid sites responsible for G4 binding and unwinding. A "molecular wire stripper" model is proposed to explain BsPif1's mechanism of G4 unwinding. These findings provide a new theoretical foundation for further exploration of the G4 development mechanism in Pif1 family helicases.
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Affiliation(s)
- Yang-Xue Dai
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China; College of Basic Medicine, Zunyi Medical University, Zunyi 563000, China
| | - Xiao-Lei Duan
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China; Department of Laboratory Medicine, Affiliated Hospital of Zunyi Medical University, Zunyi 563000, China
| | - Wen-Tong Fu
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Shan Wang
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Na-Nv Liu
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Hai-Hong Li
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Xia Ai
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Hai-Lei Guo
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Cel Areny Navés
- Université Paris-Saclay, ENS Paris-Saclay, CNRS, LBPA, 91190 Gif-sur-Yvette, France
| | - Elisabeth Bugnard
- Université Paris-Saclay, ENS Paris-Saclay, CNRS, LBPA, 91190 Gif-sur-Yvette, France
| | - Daniel Auguin
- Laboratoire de Physiologie, Ecologie et Environnement(P2E), UPRES EA 1207/USC INRAE-1328, UFR Sciences et Techniques, Université d'Orléans, Orléans, France
| | - Xi-Miao Hou
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Stephane Rety
- Université de Lyon, ENS de Lyon, Université Claude Bernard, CNRS UMR 5239, INSERM U1210, LBMC, 46 allée d'Italie, Site Jacques Monod, 69007 Lyon, France.
| | - Xu-Guang Xi
- College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China; Université Paris-Saclay, ENS Paris-Saclay, CNRS, LBPA, 91190 Gif-sur-Yvette, France.
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