› 2vlc

X-ray diffraction
2.95Å resolution

Crystal structure of Natural Cinnamomin (Isoform III)

Released:
DOI: 10.2210/pdb2vlc/pdb
PDB entry 2vlc coloured by chain, front view.
PDB entry 2vlc coloured by chain, side view.
PDB entry 2vlc coloured by chain, top view.
Source organism: Cinnamomum camphora
Primary publication:
Crystal structure of native cinnamomin isoform III and its comparison with other ribosome inactivating proteins.
Azzi A, Wang T, Zhu DW, Zou YS, Liu WY, Lin SX
Proteins 74 250-5 (2009)
PMID: 18837036

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-188220 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Ribosome-inactivating protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 570 amino acids
Theoretical weight: 63.43 KDa
Source organism: Cinnamomum camphora
UniProt:
  • Canonical: Q94BW3 (Residues: 11-580; Coverage: 100%)
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand BMA 2 x BMA
Ligand XYP 2 x XYP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU ULTRAX 18
Spacegroup: P212121
Unit cell:
a: 52.388Å b: 126.329Å c: 161.451Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.242 0.238 0.309

Quick links

Citations

2 review citations

Strategies to Improve the Clinical Utility of Saporin-Based Targeted Toxins.
Giansanti et al. (2018)
1 more

3 mentions without citation

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