Single-molecule microscopy image data and analysis files for “Protein unties the pseudoknot: S1-mediated unfolding of RNA higher order structure.”

Lund, Paul E.; Chatterjee, Surajit; Daher, May; Walter, Nils G.

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Work Description

Title: Single-molecule microscopy image data and analysis files for “Protein unties the pseudoknot: S1-mediated unfolding of RNA higher order structure.” Tombstone Deposited

Attribute	Value
Methodology	Single molecule Förster resonance energy transfer (smFRET) experiments were performed on a prism-based TIRF microscope (IX 71; Olympus) with a 1.2-numerical aperture 60X water-immersion objective (Olympus UplanApo) and an intensified CCD camera (I-Pentamax, Princeton Instruments). The DY547 molecules were excited with a 532 nm diode laser and emission from DY547 and Cy5 were recorded at a 100 ms exposure time in mj2 format. Melting experiments were performed on a Beckman DU® 640B spectrophotometer fitted with a high performance temperature controller unit, transport accessory and Tm six-cell holder.
Description	This work contains the experimental data and associated analysis that are described in the research publication entitled "Protein unties the pseudoknot: S1-mediated unfolding of RNA higher order structure". This work contains multiple zip files, each of which represents one of the principal experiment groups presented in the publication. Each experiment group contains movie and analysis files corresponding to various experimental conditions related to that experiment group. A zip file containing the processed single molecule data files used as input for Single Molecule Cluster Analysis (SiMCAn), and the corresponding analysis outputs are also provided. Additionally, there are zip files containing: the IDL and Matlab scripts that were used to process the single molecule data, Matlab scripts used to analyze melting curve data, and Matlab scripts and used to perform SiMCAn analysis.
Creator	Lund, Paul E. Chatterjee, Surajit Daher, May Walter, Nils G.
Depositor	palund@umich.edu
Contact information	nwalter@umich.edu
Discipline	Science
Funding agency	National Institutes of Health (NIH)
Keyword	Ribosomal protein S1 RNA-protein interaction RNA pseudoknot preQ1 riboswitch single molecule fluorescence resonance energy transfer
Date coverage	2015-01-01 to 2019-06-01
Citations to related material	Lund, P. E., Chatterjee, S., Daher, M., & Walter, N. G. (2020). Protein unties the pseudoknot: S1-mediated unfolding of RNA higher order structure. Nucleic Acids Research, 48(4), 2107–2125. https://doi.org/10.1093/nar/gkz1166
Resource type	Dataset
Last modified	09/11/2023
Published	09/11/2023
Language	English Matlab
DOI	https://doi.org/10.7302/pztk-pf12
Ticket	https://tools.lib.umich.edu/jira/browse/DBHELP-1805
License	http://creativecommons.org/licenses/by-nc/4.0/
View Users	palund@umich.edu
Edit Users	fritx@umich.edu surajitc@umich.edu
View Groups	admin

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