8IBW

Structure of R2 with 3'UTR and DNA in binding state

Summary for 8IBW

• Entry DOI: 10.2210/pdb8ibw/pdb
• EMDB information: 35347
• Descriptor: DNA (60-MER), Reverse transcriptase-like protein, 3'UTR, ... (5 entities in total)
• Functional Keywords: r2 complex, rna binding protein/rna/dna, rna binding protein-rna-dna complex
• Biological source: Bombyx mori (domestic silkworm); More
• Total number of polymer chains: 4
• Total formula weight: 176527.49

Authors

Deng, P.,Tan, S.,Wang, J.,Liu, J.J. (deposition date: 2023-02-10, release date: 2023-09-20)

Primary citation

Deng, P.,Tan, S.Q.,Yang, Q.Y.,Fu, L.,Wu, Y.,Zhu, H.Z.,Sun, L.,Bao, Z.,Lin, Y.,Zhang, Q.C.,Wang, H.,Wang, J.,Liu, J.G.
Structural RNA components supervise the sequential DNA cleavage in R2 retrotransposon.
Cell, 186:2865-2879.e20, 2023

PubMed Abstract: Retroelements are the widespread jumping elements considered as major drivers for genome evolution, which can also be repurposed as gene-editing tools. Here, we determine the cryo-EM structures of eukaryotic R2 retrotransposon with ribosomal DNA target and regulatory RNAs. Combined with biochemical and sequencing analysis, we reveal two essential DNA regions, Drr and Dcr, required for recognition and cleavage. The association of 3' regulatory RNA with R2 protein accelerates the first-strand cleavage, blocks the second-strand cleavage, and initiates the reverse transcription starting from the 3'-tail. Removing 3' regulatory RNA by reverse transcription allows the association of 5' regulatory RNA and initiates the second-strand cleavage. Taken together, our work explains the DNA recognition and RNA supervised sequential retrotransposition mechanisms by R2 machinery, providing insights into the retrotransposon and application reprogramming.

PubMed: 37301196
DOI: 10.1016/j.cell.2023.05.032

Experimental method

ELECTRON MICROSCOPY (3.6 Å)