› 5ki6

X-ray diffraction
2.15Å resolution

Human Argonaute-2 bound to a guide RNA with a nucleobase modification at position 1

Released:
DOI: 10.2210/pdb5ki6/pdb
PDB entry 5ki6 coloured by chain, front view.
PDB entry 5ki6 coloured by chain, side view.
PDB entry 5ki6 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure-Guided Control of siRNA Off-Target Effects.
Suter SR, Sheu-Gruttadauria J, Schirle NT, Valenzuela R, Ball-Jones AA, Onizuka K, MacRae IJ, Beal PA
J Am Chem Soc 138 8667-9 (2016)
PMID: 27387838

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage to 5'-phosphomonoester
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193882 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Protein argonaute-2 Chain: A
Molecule details ›
Chain: A
Length: 859 amino acids
Theoretical weight: 97.38 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9UKV8 (Residues: 1-859; Coverage: 100%)
Gene names: AGO2, EIF2C2
Sequence domains:
Structure domains:
miR-122 Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.9 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand IPH 3 x IPH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P21
Unit cell:
a: 63.276Å b: 107.297Å c: 68.855Å
α: 90° β: 107.44° γ: 90°
R-values:
R R work R free
0.239 0.238 0.27
Expression systems:
  • Spodoptera frugiperda
  • Not provided

Quick links

Citations

5 review citations

Fundamentals of siRNA and miRNA therapeutics and a review of targeted nanoparticle delivery systems in breast cancer.
Ahmadzada et al. (2018)
4 more