› 1r9f

X-ray diffraction
1.85Å resolution

Crystal structure of p19 complexed with 19-bp small interfering RNA

Released:
DOI: 10.2210/pdb1r9f/pdb
PDB entry 1r9f coloured by chain, front view.
PDB entry 1r9f coloured by chain, side view.
PDB entry 1r9f coloured by chain, top view.
Source organism: Tomato bushy stunt virus
Primary publication:
Recognition of small interfering RNA by a viral suppressor of RNA silencing.
Ye K, Malinina L, Patel DJ
Nature 426 874-8 (2003)
PMID: 14661029

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145895 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
RNA silencing suppressor p19 Chain: A
Molecule details ›
Chain: A
Length: 136 amino acids
Theoretical weight: 15.75 KDa
Source organism: Tomato bushy stunt virus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P11690 (Residues: 26-158; Coverage: 77%)
Gene name: ORF4
Sequence domains: Tombusvirus P19 core protein
Structure domains: RNA silencing suppressor P19
5'-R(*CP*GP*UP*AP*CP*GP*CP*GP*GP*AP*AP*UP*AP*CP*UP*UP*CP*GP*AP*UP*U)-3' Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.69 KDa
Source organism: Tomato bushy stunt virus
Expression system: Not provided
5'-R(*UP*CP*GP*AP*AP*GP*UP*AP*UP*UP*CP*CP*GP*CP*GP*UP*AP*CP*GP*UP*U)-3' Chain: C
Molecule details ›
Chain: C
Length: 21 nucleotides
Theoretical weight: 6.67 KDa
Source organism: Tomato bushy stunt virus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
1 modified residue:
Ligand MSE 4 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-ID-B
Spacegroup: R32
Unit cell:
a: 91.249Å b: 91.249Å c: 148.63Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.212 0.23
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

62 review citations

Mechanisms of gene silencing by double-stranded RNA.
Meister et al. (2004)
61 more

15 mentions without citation

Peptide-mediated cellular delivery of oligonucleotide-based therapeutics in vitro: quantitative evaluation of overall efficacy employing easy to handle reporter systems.
Laufer et al. (2008)
14 more