Bifidobacterium bifidum SAM-VI Riboswitch Conformation Change Requires Peripheral Helix Formation
Abstract
:1. Introduction
2. Results
2.1. Design of the SAM-VI Riboswitch and Its Variant Constructs for Structural Studies
2.2. SHAPE Analysis of SAM-Induced Conformational Dynamics in the SAM-VI Riboswitch
2.3. SAXS Reveals SAM-Induced Conformational Changes of the SAM-VI Riboswitch
2.4. Calorimetric Analysis of Ligand Binding by the SAM-VI Riboswitch
3. Discussion
4. Materials and Methods
4.1. RNA Preparation
4.2. SHAPE Probing Analysis
4.3. Prediction of the Three-Dimensional Structure of the SAM-VI Riboswitch and Variants
4.4. Small-Angle X-ray Scattering Experiments and Data Analysis
4.5. Isothermal Titration Calorimetry
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Xiao, W.; Liu, G.; Chen, T.; Zhang, Y.; Lu, C. Bifidobacterium bifidum SAM-VI Riboswitch Conformation Change Requires Peripheral Helix Formation. Biomolecules 2024, 14, 742. https://doi.org/10.3390/biom14070742
Xiao W, Liu G, Chen T, Zhang Y, Lu C. Bifidobacterium bifidum SAM-VI Riboswitch Conformation Change Requires Peripheral Helix Formation. Biomolecules. 2024; 14(7):742. https://doi.org/10.3390/biom14070742
Chicago/Turabian StyleXiao, Wenwen, Guangfeng Liu, Ting Chen, Yunlong Zhang, and Changrui Lu. 2024. "Bifidobacterium bifidum SAM-VI Riboswitch Conformation Change Requires Peripheral Helix Formation" Biomolecules 14, no. 7: 742. https://doi.org/10.3390/biom14070742