› 1rl0

X-ray diffraction
1.4Å resolution

Crystal structure of a new ribosome-inactivating protein (RIP): dianthin 30

Released:
DOI: 10.2210/pdb1rl0/pdb
PDB entry 1rl0 coloured by chain, front view.
PDB entry 1rl0 coloured by chain, side view.
PDB entry 1rl0 coloured by chain, top view.
Source organism: Dianthus caryophyllus
Primary publication:
The 1.4 anstroms structure of dianthin 30 indicates a role of surface potential at the active site of type 1 ribosome inactivating proteins.
Fermani S, Falini G, Ripamonti A, Polito L, Stirpe F, Bolognesi A
J Struct Biol 149 204-12 (2005)
PMID: 15681236

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

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150237 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosome-inactivating protein dianthin-30 Chain: A
Molecule details ›
Chain: A
Length: 255 amino acids
Theoretical weight: 28.63 KDa
Source organism: Dianthus caryophyllus
UniProt:
  • Canonical: P24476 (Residues: 24-278; Coverage: 94%)
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P21
Unit cell:
a: 37.568Å b: 78.654Å c: 43.136Å
α: 90° β: 105.39° γ: 90°
R-values:
R R work R free
0.184 0.184 0.206

Quick links

Citations

3 review citations

Saporin-S6: a useful tool in cancer therapy.
Polito et al. (2013)
2 more

7 mentions without citation

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