› 5cv1

X-ray diffraction
3.6Å resolution

C. elegans PGL-1 Dimerization Domain

Released:
DOI: 10.2210/pdb5cv1/pdb
PDB entry 5cv1 coloured by chain, front view.
PDB entry 5cv1 coloured by chain, side view.
PDB entry 5cv1 coloured by chain, top view.
Source organism: Caenorhabditis elegans
Primary publication:
PGL germ granule assembly protein is a base-specific, single-stranded RNase.
Aoki ST, Kershner AM, Bingman CA, Wickens M, Kimble J
Proc Natl Acad Sci U S A 113 1279-84 (2016)
PMID: 26787882

Function and Biology Details

Reaction catalysed: 
(1a) (RNA) containing guanosine = (RNA fragment)-3'-guanosine-2',3'-cyclophosphate + a 5'-hydroxy-ribonucleotide-3'-(RNA fragment)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193589 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Guanyl-specific ribonuclease pgl-1 Chain: A
Molecule details ›
Chain: A
Length: 243 amino acids
Theoretical weight: 27.25 KDa
Source organism: Caenorhabditis elegans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9TZQ3 (Residues: 205-447; Coverage: 33%)
Gene names: ZK381.4, pgl-1

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: P6122
Unit cell:
a: 59.72Å b: 59.72Å c: 227.24Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.301 0.299 0.321
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

7 review citations

The P Granules of C. elegans: A Genetic Model for the Study of RNA-Protein Condensates.
Seydoux G. (2018)
6 more

1 mention without citation

PGL germ granule assembly protein is a base-specific, single-stranded RNase.
Aoki et al. (2016)