› 3ku0

X-ray diffraction
1.9Å resolution

Structure of GAP31 with adenine at its binding pocket

Released:
DOI: 10.2210/pdb3ku0/pdb
PDB entry 3ku0 coloured by chain, front view.
PDB entry 3ku0 coloured by chain, side view.
PDB entry 3ku0 coloured by chain, top view.
Source organism: Suregada multiflora
Primary publication:
A new activity of anti-HIV and anti-tumor protein GAP31: DNA adenosine glycosidase--structural and modeling insight into its functions.
Li HG, Huang PL, Zhang D, Sun Y, Chen HC, Zhang J, Huang PL, Kong XP, Lee-Huang S
Biochem Biophys Res Commun 391 340-5 (2010)
PMID: 19913503

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-152555 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosome-inactivating protein gelonin Chains: A, B
Molecule details ›
Chains: A, B
Length: 251 amino acids
Theoretical weight: 28.21 KDa
Source organism: Suregada multiflora
UniProt:
  • Canonical: P33186 (Residues: 47-297; Coverage: 87%)
Gene name: GEL
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand ADE 2 x ADE
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12B
Spacegroup: P21
Unit cell:
a: 48.373Å b: 44.395Å c: 137.27Å
α: 90° β: 98.38° γ: 90°
R-values:
R R work R free
0.2 0.2 0.242

Quick links

Citations

3 review citations

Antiviral Activity of Ribosome-Inactivating Proteins.
Citores et al. (2021)
2 more

1 mention without citation

Plant Ribosome-Inactivating Proteins: Progesses, Challenges and Biotechnological Applications (and a Few Digressions).
Fabbrini et al. (2017)