7PTL

Mature conformer of a 6-helix bundle of RNA with clasp

Summary for 7PTL

• Entry DOI: 10.2210/pdb7ptl/pdb
• EMDB information: 13630
• Descriptor: Chains: B (1 entity in total)
• Functional Keywords: rna, origami, nanostructure
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 231958.13

Authors

McRae, E.K.S.,Andersen, E.S. (deposition date: 2021-09-27, release date: 2022-10-05, Last modification date: 2024-07-17)

Primary citation

McRae, E.K.S.,Rasmussen, H.O.,Liu, J.,Boggild, A.,Nguyen, M.T.A.,Sampedro Vallina, N.,Boesen, T.,Pedersen, J.S.,Ren, G.,Geary, C.,Andersen, E.S.
Structure, folding and flexibility of co-transcriptional RNA origami.
Nat Nanotechnol, 18:808-817, 2023

PubMed Abstract: RNA origami is a method for designing RNA nanostructures that can self-assemble through co-transcriptional folding with applications in nanomedicine and synthetic biology. However, to advance the method further, an improved understanding of RNA structural properties and folding principles is required. Here we use cryogenic electron microscopy to study RNA origami sheets and bundles at sub-nanometre resolution revealing structural parameters of kissing-loop and crossover motifs, which are used to improve designs. In RNA bundle designs, we discover a kinetic folding trap that forms during folding and is only released after 10 h. Exploration of the conformational landscape of several RNA designs reveal the flexibility of helices and structural motifs. Finally, sheets and bundles are combined to construct a multidomain satellite shape, which is characterized by individual-particle cryo-electron tomography to reveal the domain flexibility. Together, the study provides a structural basis for future improvements to the design cycle of genetically encoded RNA nanodevices.

PubMed: 36849548
DOI: 10.1038/s41565-023-01321-6

Experimental method

ELECTRON MICROSCOPY (4.9 Å)