› 4n47

X-ray diffraction
2.82Å resolution

Structure of Thermus thermophilus Argonaute bound to guide DNA and 12-mer target DNA

Released:
DOI: 10.2210/pdb4n47/pdb
PDB entry 4n47 coloured by chain, front view.
PDB entry 4n47 coloured by chain, side view.
PDB entry 4n47 coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage.
Sheng G, Zhao H, Wang J, Rao Y, Tian W, Swarts DC, van der Oost J, Patel DJ, Wang Y
Proc Natl Acad Sci U S A 111 652-7 (2014)
PMID: 24374628

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117864 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Protein argonaute Chain: A
Molecule details ›
Chain: A
Length: 685 amino acids
Theoretical weight: 76.73 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q746M7 (Residues: 1-685; Coverage: 100%)
Gene names: TT_P0026, ago
Sequence domains:
Structure domains:
5'-D(*CP*CP*TP*AP*CP*TP*AP*CP*CP*TP*CP*G)-3' Chain: D
Molecule details ›
Chain: D
Length: 12 nucleotides
Theoretical weight: 3.56 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3' Chain: C
Molecule details ›
Chain: C
Length: 21 nucleotides
Theoretical weight: 6.59 KDa
Source organism: Thermus thermophilus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P212121
Unit cell:
a: 58.886Å b: 110.548Å c: 124.039Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.192 0.264
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

22 review citations

Unravelling the structural and mechanistic basis of CRISPR-Cas systems.
van der Oost et al. (2014)
21 more

4 mentions without citation

The evolutionary journey of Argonaute proteins.
Swarts et al. (2014)
3 more