› 2b7u

X-ray diffraction
1.6Å resolution

Ribosome inactivating protein type 1 from Charybdis maritima AGG

Released:
DOI: 10.2210/pdb2b7u/pdb
PDB entry 2b7u coloured by chain, front view.
PDB entry 2b7u coloured by chain, side view.
PDB entry 2b7u coloured by chain, top view.
Source organism: Squilla maritima
Primary publication:
Isolation, characterization, sequencing and crystal structure of charybdin, a type 1 ribosome-inactivating protein from Charybdis maritima agg.
Touloupakis E, Gessmann R, Kavelaki K, Christofakis E, Petratos K, Ghanotakis DF
FEBS J 273 2684-92 (2006)
PMID: 16817896

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

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160911 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosome-inactivating protein charybdin Chain: A
Molecule details ›
Chain: A
Length: 257 amino acids
Theoretical weight: 29.29 KDa
Source organism: Squilla maritima
UniProt:
  • Canonical: P84786 (Residues: 1-257; Coverage: 100%)
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: C2
Unit cell:
a: 99.24Å b: 57.24Å c: 51.088Å
α: 90° β: 104.08° γ: 90°
R-values:
R R work R free
0.186 0.182 0.208

Quick links

Citations

4 review citations

Ribosome-inactivating and related proteins.
Schrot et al. (2015)
3 more

2 mentions without citation

Structures and Ribosomal Interaction of Ribosome-Inactivating Proteins.
Shi et al. (2016)
1 more