› 9bf2

X-ray diffraction
1.59Å resolution

MID domain of Ago2 bound to UMP

Released:
DOI: 10.2210/pdb9bf2/pdb
Model geometry
Fit model/data
PDB entry 9bf2 coloured by chain, front view.
PDB entry 9bf2 coloured by chain, side view.
PDB entry 9bf2 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure and Stability of Ago2 MID-Nucleotide Complexes: All-in-One (Drop) His6-SUMO Tag Removal, Nucleotide Binding, and Crystal Growth.
Lei L, Harp JM, Chaput JC, Wassarman K, Schlegel MK, Manoharan M, Egli M
Curr Protoc 4 e1088 (2024)
PMID: 38923271

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage to 5'-phosphomonoester
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-275489 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Protein argonaute-2 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 136 amino acids
Theoretical weight: 15.12 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UKV8 (Residues: 440-575; Coverage: 16%)
Gene names: AGO2, EIF2C2
Sequence domains: Mid domain of argonaute

Ligands and Environments

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

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: Excillum MetalJet D2+ 70 kV
Spacegroup: P1
Unit cell:
a: 39.608Å b: 46.339Å c: 64.92Å
α: 87.58° β: 74.68° γ: 85.87°
R-values:
R R work R free
0.164 0.163 0.187
Expression system: Escherichia coli

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