› 1qi7

X-ray diffraction
2Å resolution

THE CRYSTAL STRUCTURE AT 2.0 A OF SAPORIN SO6, A RIBOSOME INACTIVATING PROTEIN FROM SAPONARIA OFFICINALIS

Released:
DOI: 10.2210/pdb1qi7/pdb
PDB entry 1qi7 coloured by chain, front view.
PDB entry 1qi7 coloured by chain, side view.
PDB entry 1qi7 coloured by chain, top view.
Source organism: Saponaria officinalis
Primary publication:
The crystal structure of saporin SO6 from Saponaria officinalis and its interaction with the ribosome.
Savino C, Federici L, Ippoliti R, Lendaro E, Tsernoglou D
FEBS Lett 470 239-43 (2000)
PMID: 10745075

Function and Biology Details

Reaction catalysed: 
Endohydrolysis of the N-glycosidic bond at one specific adenosine on the 28S rRNA.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-149023 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosome-inactivating protein saporin-6 Chain: A
Molecule details ›
Chain: A
Length: 253 amino acids
Theoretical weight: 28.62 KDa
Source organism: Saponaria officinalis
UniProt:
  • Canonical: P20656 (Residues: 25-277; Coverage: 92%)
Gene name: SAP6
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P4322
Unit cell:
a: 67.53Å b: 67.53Å c: 119.67Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.182 0.227

Quick links

Citations

5 review citations

Ribosome-inactivating proteins: potent poisons and molecular tools.
Walsh et al. (2013)
4 more

16 mentions without citation

Ribosome-inactivating proteins: from plant defense to tumor attack.
de Virgilio et al. (2010)
15 more