8HIL

A cryo-EM structure of B. oleracea RNA polymerase V at 3.57 Angstrom

Summary for 8HIL

• Entry DOI: 10.2210/pdb8hil/pdb
• EMDB information: 34820
• Descriptor: DNA-directed RNA polymerase V largest subunit, DNA-directed RNA polymerases II, IV and V subunit 12, ZINC ION, ... (12 entities in total)
• Functional Keywords: dna-dependent rna polymerase v, transcription
• Biological source: Brassica oleracea; More
• Total number of polymer chains: 10
• Total formula weight: 491446.48

Authors

Du, X.,Xie, G.,Hu, H.,Du, J. (deposition date: 2022-11-20, release date: 2023-03-22, Last modification date: 2024-07-03)

Primary citation

Xie, G.,Du, X.,Hu, H.,Li, S.,Cao, X.,Jacobsen, S.E.,Du, J.
Structure and mechanism of the plant RNA polymerase V.
Science, 379:1209-1213, 2023

PubMed Abstract: In addition to the conserved RNA polymerases I to III (Pols I to III) in eukaryotes, two atypical polymerases, Pols IV and V, specifically produce noncoding RNA in the RNA-directed DNA methylation pathway in plants. Here, we report on the structures of cauliflower Pol V in the free and elongation conformations. A conserved tyrosine residue of NRPE2 stacks with a double-stranded DNA branch of the transcription bubble to potentially attenuate elongation by inducing transcription stalling. The nontemplate DNA strand is captured by NRPE2 to enhance backtracking, thereby increasing 3'-5' cleavage, which likely underpins Pol V's high fidelity. The structures also illuminate the mechanism of Pol V transcription stalling and enhanced backtracking, which may be important for Pol V's retention on chromatin to serve its function in tethering downstream factors for RNA-directed DNA methylation.

PubMed: 36893216
DOI: 10.1126/science.adf8231

Experimental method

ELECTRON MICROSCOPY (3.57 Å)