› 5fgu

X-ray diffraction
1.9Å resolution

Structure of Sda1 nuclease apoprotein as an EGFP fixed-arm fusion

Released:
DOI: 10.2210/pdb5fgu/pdb
PDB entry 5fgu coloured by chain, front view.
PDB entry 5fgu coloured by chain, side view.
PDB entry 5fgu coloured by chain, top view.
Source organisms:
Primary publication:
Structural characterization of the virulence factor Sda1 nuclease from Streptococcus pyogenes.
Moon AF, Krahn JM, Lu X, Cuneo MJ, Pedersen LC
OpenAccess logo Nucleic Acids Res 44 3946-57 (2016)
PMID: 26969731

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-544901 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA/RNA non-specific endonuclease/pyrophosphatase/phosphodiesterase domain-containing protein; Green fluorescent protein Chain: A
Molecule details ›
Chain: A
Length: 565 amino acids
Theoretical weight: 63.63 KDa
Source organisms: Expression system: Escherichia coli
UniProt:
  • Canonical: P42212 (Residues: 1-229; Coverage: 96%)
  • Canonical: Q675N6 (Residues: 59-390; Coverage: 85%)
Gene names: GFP, sda1
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand EDO 4 x EDO
Ligand ACT 4 x ACT
1 modified residue:
Ligand CR2 1 x CR2

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: C2221
Unit cell:
a: 81.407Å b: 139.373Å c: 120.97Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.178 0.177 0.201
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Role of Extracellular Trap Release During Bacterial and Viral Infection.
Schultz et al. (2022)
3 more

2 mentions without citation

Immunomodulating Enzymes from Streptococcus pyogenes-In Pathogenesis, as Biotechnological Tools, and as Biological Drugs.
Happonen et al. (2024)
1 more