› 1il3

X-ray diffraction
2.8Å resolution

STRUCTURE OF RICIN A CHAIN BOUND WITH INHIBITOR 7-DEAZAGUANINE

Released:
DOI: 10.2210/pdb1il3/pdb
PDB entry 1il3 coloured by chain, front view.
PDB entry 1il3 coloured by chain, side view.
PDB entry 1il3 coloured by chain, top view.
Source organism: Ricinus communis
Primary publication:
Structure-based design and characterization of novel platforms for ricin and shiga toxin inhibition.
Miller DJ, Ravikumar K, Shen H, Suh JK, Kerwin SM, Robertus JD
J Med Chem 45 90-8 (2002)
PMID: 11754581

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-136287 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ricin A chain Chain: A
Molecule details ›
Chain: A
Length: 267 amino acids
Theoretical weight: 29.94 KDa
Source organism: Ricinus communis
Expression system: Escherichia coli
UniProt:
  • Canonical: P02879 (Residues: 36-302; Coverage: 49%)
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand 7DG 1 x 7DG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P21
Unit cell:
a: 42.77Å b: 68.27Å c: 49.93Å
α: 90° β: 112.9° γ: 90°
R-values:
R R work R free
0.202 0.202 0.273
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Shiga toxins--from cell biology to biomedical applications.
Johannes et al. (2010)
8 more

1 mention without citation

Small-molecule inhibitor leads of ribosome-inactivating proteins developed using the doorstop approach.
Pang et al. (2011)