PDBsum entry 6bjh

RNA binding protein

PDB id: 6bjh

Contents

Protein chains

143 a.a.

DNA/RNA

Waters ×129

PDB id:

6bjh

Name:

RNA binding protein

Title:

Cirv p19 mutant t111s in complex with sirna

Structure:

RNA silencing suppressor p19. Chain: a, b. Synonym: 19 kda symptom severity modulator. Engineered: yes. Mutation: yes. RNA (5'- r(p Up Cp Gp Ap Ap Gp Up Ap Up Up Cp Cp Gp Cp Gp Up Ap Cp Gp Up U)- 3'). Chain: c.

Source:

Carnation italian ringspot virus. Cirv. Organism_taxid: 39443. Gene: orf4. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Lampyridae. Organism_taxid: 7049.

Resolution:

2.58Å R-factor: 0.227 R-free: 0.278

Authors:

D.V.Foss,N.T.Schirle,I.J.Macrae,J.P.Pezacki

Key ref:

D.V.Foss et al. (2019). Structural insights into interactions between viral suppressor of RNA silencing protein p19 mutants and small RNAs. FEBS Open Bio, 9, 1042-1051. PubMed id: 31021526 DOI: 10.1002/2211-5463.12644

Date:

06-Nov-17 Release date: 16-Jan-19

Protein chains

Q66104  (P19_CIRV) -  RNA silencing suppressor p19 from Carnation Italian ringspot virus

Seq: 172 a.a.

Struc: 143 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

DNA/RNA chains

U-C-G-A-A-G-U-A-U-U-C-C-G-C-G-U-A-C-G-U-U 21 bases

C-G-U-A-C-G-C-G-G-A-A-U-A-C-U-U-C-G-A-U-U 21 bases

DOI no: 10.1002/2211-5463.12644

FEBS Open Bio 9:1042-1051 (2019)

PubMed id: 31021526

Structural insights into interactions between viral suppressor of RNA silencing protein p19 mutants and small RNAs.

D.V.Foss, N.T.Schirle, I.J.MacRae, J.P.Pezacki.

ABSTRACT

Viral suppressors of RNA silencing (VSRSs) are a diverse group of viral proteins that have evolved to disrupt eukaryotic RNA silencing pathways, thereby contributing to viral pathogenicity. The p19 protein is a VSRS that selectively binds to short interfering RNAs (siRNAs) over microRNAs (miRNAs). Mutational analysis has identified single amino acid substitutions that reverse this selectivity through new high-affinity interactions with human miR-122. Herein, we report crystal structures of complexed p19-T111S (2.6 Å), p19-T111H (2.3 Å) and wild-type p19 protein (2.2 Å) from the Carnation Italian ringspot virus with small interfering RNA (siRNA) ligands. Structural comparisons reveal that these mutations do not lead to major changes in p19 architecture, but instead promote subtle rearrangement of residues and solvent molecules along the p19 midline. These observations suggest p19 uses many small interactions to distinguish siRNAs from miRNAs and perturbing these interactions can create p19 variants with novel RNA-recognition properties. DATABASE: Model data are deposited in the PDB database under the accession numbers 6BJG, 6BJH and 6BJV.