› 5gz7

X-ray diffraction
1.95Å resolution

Crystal Structure of the complex of Ribosome Inactivating Protein with 1,2-ethanediol at 1.95 Angstrom resolution

Released:
DOI: 10.2210/pdb5gz7/pdb
PDB entry 5gz7 coloured by chain, front view.
PDB entry 5gz7 coloured by chain, side view.
PDB entry 5gz7 coloured by chain, top view.
Source organism: Momordica balsamina
Entry authors: Tiwari P, Pandey SN, Kaur P, Sharma S, Singh TP

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-112979 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
rRNA N-glycosylase Chain: A
Molecule details ›
Chain: A
Length: 246 amino acids
Theoretical weight: 27.09 KDa
Source organism: Momordica balsamina
UniProt:
  • Canonical: D9J2T9 (Residues: 1-246; Coverage: 100%)
Gene name: RIP
Sequence domains: Ribosome inactivating protein
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand NAG 1 x NAG
Ligand GOL 2 x GOL
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: R3
Unit cell:
a: 130.197Å b: 130.197Å c: 40.656Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.159 0.156 0.214

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