Single-molecule and bulk fluorescence and biolayer interferometry on the NAD-II riboswitch and its interactions with NMN

The Class II NAD+ riboswitch is a bacterial RNA that binds ligands containing nicotinamide. Herein, we report a fluorescence and biolayer interferometry study of riboswitch interactions with β-NMN. The results reveal a shift in the prevalence of a pseudoknot structure in the presence of ligand and Mg2+., Bulk fluorometry, single-molecule microscopy, gel electrophoresis, biolayer interferometry data on the NAD-II riboswitch., , # NAD+-II riboswitch [https://doi.org/10.5061/dryad.4b8gthtnw](https://doi.org/10.5061/dryad.4b8gthtnw) ## Description of the data and file structure The NAD+-II riboswitch was studied using bulk and single-molecule fluorescence and biolayer interferometry. ### Files and variables #### File: NADII-data.zip **Description:** `BLI_P1a` contains biolayer interferometry traces for P1a-modified riboswitch and fits. * \"assay_full\" contains times and corresponding datapoints for all samples. * 20240729_whole_align_assoc contains contains times and corresponding datapoints with the first datapoint in the association phase shifted to match for all samples. * 1to1fitassoc and 2to1fit_assoc contain 1:1 and 2:1 fits to the association phases of P1a-Cy5 RNA in 20 mM MgCl2. This data was exported from the software of a Gator Bio BLI instrument and can be opened in any program that reads text or tables. `BLI_U14` contains BLI traces and fits for U14-modified riboswitch. \"assay_full\" contai...II类NAD+核糖开关（Class II NAD+ riboswitch）是一类能够结合含烟酰胺配体的细菌RNA。本研究报道了核糖开关与β-NMN相互作用的荧光及生物层干涉测量（biolayer interferometry）研究结果。实验发现，在配体与Mg²+共存条件下，假结结构（pseudoknot structure）的占比发生显著变化。本数据集包含针对NAD-II核糖开关的批量荧光检测、单分子显微镜观测、凝胶电泳及生物层干涉测量相关数据。# NAD+-II核糖开关 https://doi.org/10.5061/dryad.4b8gthtnw ## 数据与文件结构说明 本研究通过批量荧光检测、单分子荧光成像及生物层干涉测量技术对NAD+-II核糖开关开展研究。 ### 文件与变量 #### 文件：NADII-data.zip **描述：** `BLI_P1a` 包含经P1a修饰的核糖开关的生物层干涉测量轨迹及拟合结果。 * "assay_full" 包含所有样本的检测时间与对应数据点。 * 20240729_whole_align_assoc 包含所有样本的检测时间与对应数据点，其中关联相的首个数据点经对齐统一匹配。 * 1to1fitassoc 与 2to1fit_assoc 分别包含20 mM氯化镁溶液中P1a-Cy5 RNA关联相的1:1及2:1拟合结果。该数据由Gator Bio BLI仪器的配套软件导出，可通过任意支持文本或表格读取的程序打开。 `BLI_U14` 包含经U14修饰的核糖开关的BLI轨迹及拟合结果。"assay_full" 包含……