› 4w5q

X-ray diffraction
3.1Å resolution

The Crystal Structure of Human Argonaute2 Bound to a Guide and Target RNA Containing Seed Pairing from 2-8

Released:
DOI: 10.2210/pdb4w5q/pdb
PDB entry 4w5q coloured by chain, front view.
PDB entry 4w5q coloured by chain, side view.
PDB entry 4w5q coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for microRNA targeting.
Schirle NT, Sheu-Gruttadauria J, MacRae IJ
Science 346 608-13 (2014)
PMID: 25359968

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 trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193870 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 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:
RNA (5'-R(P*UP*UP*CP*AP*CP*AP*UP*UP*GP*CP*CP*CP*AP*AP*GP*UP*CP*U)-3') Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.55 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(*AP*AP*AP*UP*GP*UP*GP*AP*AP*A)-3') Chain: D
Molecule details ›
Chain: D
Length: 11 nucleotides
Theoretical weight: 3.56 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 3 x MG
Ligand IPH 4 x IPH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P21
Unit cell:
a: 55.5Å b: 116.655Å c: 70.066Å
α: 90° β: 92.26° γ: 90°
R-values:
R R work R free
0.192 0.19 0.232
Expression systems:
  • Spodoptera frugiperda
  • Not provided

Quick links

Citations

85 review citations

Metazoan MicroRNAs.
Bartel DP. (2018)
84 more

6 mentions without citation

Antiviral RNAi in Insects and Mammals: Parallels and Differences.
Schuster et al. (2019)
5 more