› 6kr6

X-ray diffraction
2.9Å resolution

Crystal structure of Drosophila Piwi

Released:
DOI: 10.2210/pdb6kr6/pdb
Model geometry
Fit model/data
PDB entry 6kr6 coloured by chain, front view.
PDB entry 6kr6 coloured by chain, side view.
PDB entry 6kr6 coloured by chain, top view.
Source organism: Drosophila melanogaster
Primary publication:
Crystal structure of Drosophila Piwi.
Yamaguchi S, Oe A, Nishida KM, Yamashita K, Kajiya A, Hirano S, Matsumoto N, Dohmae N, Ishitani R, Saito K, Siomi H, Nishimasu H, Siomi MC, Nureki O
OpenAccess logo Nat Commun 11 858 (2020)
PMID: 32051406

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-194277 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Protein piwi Chain: A
Molecule details ›
Chain: A
Length: 810 amino acids
Theoretical weight: 93.71 KDa
Source organism: Drosophila melanogaster
UniProt:
  • Canonical: Q9VKM1 (Residues: 34-843; Coverage: 96%)
Gene names: CG6122, piwi
Sequence domains:
piRNA Chain: B
Molecule details ›
Chain: B
Length: 5 nucleotides
Theoretical weight: 1.4 KDa
Source organism: Drosophila melanogaster

Ligands and Environments

2 bound ligands:
Ligand ZN 8 x ZN
Ligand HG 6 x HG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SPRING-8 BEAMLINE BL32XU
Spacegroup: P212121
Unit cell:
a: 62.09Å b: 115.64Å c: 119.89Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.24 0.239 0.258

Quick links

Citations

8 review citations

Roles of piRNAs in transposon and pseudogene regulation of germline mRNAs and lncRNAs.
Wang et al. (2021)
7 more

2 mentions without citation

Structural basis for piRNA targeting.
Anzelon et al. (2021)
1 more