› 4hv7

X-ray diffraction
1.87Å resolution

Structure of ricin A chain bound with N-(N-(pterin-7-yl)carbonylglycyl)glycine

Released:
DOI: 10.2210/pdb4hv7/pdb
PDB entry 4hv7 coloured by chain, front view.
PDB entry 4hv7 coloured by chain, side view.
PDB entry 4hv7 coloured by chain, top view.
Source organism: Ricinus communis
Primary publication:
Peptide-conjugated pterins as inhibitors of ricin toxin A.
Saito R, Pruet JM, Manzano LA, Jasheway K, Monzingo AF, Wiget PA, Kamat I, Anslyn EV, Robertus JD
J Med Chem 56 320-9 (2013)
PMID: 23214944

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 analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-136287 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ricin A chain Chain: X
Molecule details ›
Chain: X
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

3 bound ligands:
Ligand 19J 1 x 19J
Ligand SO4 1 x SO4
Ligand MLA 1 x MLA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P41212
Unit cell:
a: 68.196Å b: 68.196Å c: 140.844Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.202 0.236
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Functional Assays for Measuring the Catalytic Activity of Ribosome Inactivating Proteins.
Zhou et al. (2018)
1 more

2 mentions without citation

Peptide-conjugated pterins as inhibitors of ricin toxin A.
Saito et al. (2013)
1 more