Optimal molecular crowding accelerates group II intron folding and maximizes catalysis
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Published version
Author(s)
Paudel, Bishnu P
Fiorini, Erica
Börner, Richard
Sigel, Roland KO
Rueda, David S
Type
Journal Article
Abstract
Unlike in vivo conditions, group II intron ribozymes are known to require high magnesium(II) concentrations ([Mg2+]) and high temperatures (42 °C) for folding and catalysis in vitro. A possible explanation for this difference is the highly crowded cellular environment, which can be mimicked in vitro by macromolecular crowding agents. Here, we combined bulk activity assays and single-molecule Förster Resonance Energy Transfer (smFRET) to study the influence of polyethylene glycol (PEG) on catalysis and folding of the ribozyme. Our activity studies reveal that PEG reduces the [Mg2+] required, and we found an “optimum” [PEG] that yields maximum activity. smFRET experiments show that the most compact state population, the putative active state, increases with increasing [PEG]. Dynamic transitions between folded states also increase. Therefore, this study shows that optimal molecular crowding concentrations help the ribozyme not only to reach the native fold but also to increase its in vitro activity to approach that in physiological conditions.
Date Issued
2018-11-20
Date Acceptance
2018-10-05
Citation
Proceedings of the National Academy of Sciences, 2018, 115 (47), pp.11917-11922
ISSN
0027-8424
Publisher
National Academy of Sciences
Start Page
11917
End Page
11922
Journal / Book Title
Proceedings of the National Academy of Sciences
Volume
115
Issue
47
Copyright Statement
© 2018 the Author(s). Published by PNAS.
This open access article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND) https://creativecommons.org/licenses/by-nc-nd/4.0/.
This open access article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND) https://creativecommons.org/licenses/by-nc-nd/4.0/.
Sponsor
Medical Research Council
Grant Number
MC_UP_1102/5
Subjects
Science & Technology
Multidisciplinary Sciences
Science & Technology - Other Topics
molecular crowding
large-ribozyme folding
single-molecule FRET
group II intron ribozyme
excluded volume effect
SINGLE-MOLECULE
HAMMERHEAD RIBOZYME
TERTIARY STRUCTURE
CRYSTAL-STRUCTURE
OSMOTIC-PRESSURE
RNA STRUCTURE
NATIVE-STATE
STABILITY
HAIRPIN
DNA
MD Multidisciplinary
Publication Status
Published
Date Publish Online
2018-11-05