1RPU image
Deposition Date 2003-12-03
Release Date 2004-01-13
Last Version Date 2024-02-14
Entry Detail
PDB ID:
1RPU
Keywords:
RNA Binding Protein/RNA
Title:
Crystal Structure of CIRV p19 bound to siRNA
Biological Source:
Source Organism:
Carnation Italian ringspot virus (Taxon ID: 39443)
(Taxon ID: )
Host Organism:
Escherichia coli BL21(DE3)
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.50 Å
R-Value Free:
0.28
R-Value Work:
0.22
R-Value Observed:
0.24
Space Group:
P 61 2 2
1RPU validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:19 kDa protein
Gene (Uniprot):ORF4
Chain IDs:C (auth: A), D (auth: B)
Chain Length:172
Number of Molecules:2
Biological Source:Carnation Italian ringspot virus
UniProt ID:Q66104 Pfam ID:PF03220
Polymer Type:polyribonucleotide
Molecule:5'-R(P*CP*GP*UP*AP*CP*GP*CP*GP*UP*CP*AP*CP*GP*CP*GP*UP*AP*CP*GP*UP*U)-3'
Chain IDs:A (auth: C), B (auth: D)
Chain Length:21
Number of Molecules:2
Biological Source:
Primary Citation
Size selective recognition of siRNA by an RNA silencing suppressor
Cell(Cambridge,Mass.) 115 799 811 (2003)
PMID: 14697199 DOI: 10.1016/S0092-8674(03)00984-X

Abstact

RNA silencing in plants likely exists as a defense mechanism against molecular parasites such as RNA viruses, retrotransposons, and transgenes. As a result, many plant viruses have adapted mechanisms to evade and suppress gene silencing. Tombusviruses express a 19 kDa protein (p19), which has been shown to suppress RNA silencing in vivo and bind silencing-generated and synthetic small interfering RNAs (siRNAs) in vitro. Here we report the 2.5 A crystal structure of p19 from the Carnation Italian ringspot virus (CIRV) bound to a 21 nt siRNA and demonstrate in biochemical and in vivo assays that CIRV p19 protein acts as a molecular caliper to specifically select siRNAs based on the length of the duplex region of the RNA.

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Primary Citation of related structures
1RPU