7SVA image
Deposition Date 2021-11-18
Release Date 2022-11-23
Last Version Date 2024-06-05
Entry Detail
PDB ID:
7SVA
Keywords:
GENE REGULATION
Title:
Cryo-EM structure of Arabidopsis Ago10-guide RNA complex
Biological Source:
Source Organism:
Arabidopsis thaliana (Taxon ID: 3702)
synthetic construct (Taxon ID: 32630)
Host Organism:
Spodoptera frugiperda
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.26 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7SVA validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein argonaute 10
Gene (Uniprot):AGO10
Chain IDs:A
Chain Length:988
Number of Molecules:1
Biological Source:Arabidopsis thaliana
UniProt ID:Q9XGW1 Pfam ID:PF16486, PF08699, PF02170, PF16488, PF16487, PF02171
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(P*UP*GP*GP*AP*GP*UP*GP*UP*GP*AP*CP*AP*AP*UP*GP*GP*UP*GP*UP*UP*U)-3')
Chain IDs:B
Chain Length:21
Number of Molecules:1
Biological Source:synthetic construct
Ligand Molecules
MG
Primary Citation
Structural basis for RNA slicing by a plant Argonaute.
Nat.Struct.Mol.Biol. 30 778 784 (2023)
PMID: 37127820 DOI: 10.1038/s41594-023-00989-7

Abstact

Argonaute (AGO) proteins use small RNAs to recognize transcripts targeted for silencing in plants and animals. Many AGOs cleave target RNAs using an endoribonuclease activity termed 'slicing'. Slicing by DNA-guided prokaryotic AGOs has been studied in detail, but structural insights into RNA-guided slicing by eukaryotic AGOs are lacking. Here we present cryogenic electron microscopy structures of the Arabidopsis thaliana Argonaute10 (AtAgo10)-guide RNA complex with and without a target RNA representing a slicing substrate. The AtAgo10-guide-target complex adopts slicing-competent and slicing-incompetent conformations that are unlike known prokaryotic AGO structures. AtAgo10 slicing activity is licensed by docking target (t) nucleotides t9-t13 into a surface channel containing the AGO endoribonuclease active site. A β-hairpin in the L1 domain secures the t9-t13 segment and coordinates t9-t13 docking with extended guide-target pairing. Results show that prokaryotic and eukaryotic AGOs use distinct mechanisms for achieving target slicing and provide insights into small interfering RNA potency.

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Primary Citation of related structures
7SVA