› 8wd8

Electron Microscopy
2.9Å resolution

Cryo-EM structure of TtdAgo-guide DNA-target DNA complex

Released:
DOI: 10.2210/pdb8wd8/pdb
PDB entry 8wd8 coloured by chain, front view.
PDB entry 8wd8 coloured by chain, side view.
PDB entry 8wd8 coloured by chain, top view.
Source organisms:
Primary publication:
Molecular mechanism for target recognition, dimerization, and activation of Pyrococcus furiosus Argonaute.
Wang L, Chen W, Zhang C, Xie X, Huang F, Chen M, Mao W, Yu N, Wei Q, Ma L, Li Z
Mol Cell (2024)
PMID: 38295801
Related structures: EMD-37457

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-239266 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Argonaute family protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 750 amino acids
Theoretical weight: 87.49 KDa
Source organism: Thermococcus thioreducens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0Q2M2Z1 (Residues: 1-750; Coverage: 100%)
Gene names: A3L14_06700, AMR53_05540, SAMN05216170_0611
Sequence domains:
Target DNA Chains: T, U
Molecule details ›
Chains: T, U
Length: 17 nucleotides
Theoretical weight: 5.05 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
Guide DNA Chains: G, H
Molecule details ›
Chains: G, H
Length: 16 nucleotides
Theoretical weight: 5.05 KDa
Source organism: Thermus thermophilus
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand MG 6 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.9Å
Relevant EMDB volumes: EMD-37457
Expression systems:
  • Escherichia coli 'BL21-Gold(DE3)pLysS AG'
  • Not provided

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