› 1onk

X-ray diffraction
2.1Å resolution

Mistletoe lectin I from viscum album

Released:
DOI: 10.2210/pdb1onk/pdb
PDB entry 1onk coloured by chain, front view.
PDB entry 1onk coloured by chain, side view.
PDB entry 1onk coloured by chain, top view.
Source organism: Viscum album
Entry authors: Gabdoulkhakov AG, Savoshkina Y, Krauspenhaar R, Stoeva S, Konareva N, Kornilov V, Kornev AN, Voelter W, Nikonov SV, Betzel C, Mikhailov AM

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 domains:

Structure analysis Details

Assemblies composition:
hetero tetramer
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160520 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Beta-galactoside-specific lectin 1 chain A isoform 1 Chain: A
Molecule details ›
Chain: A
Length: 254 amino acids
Theoretical weight: 28.5 KDa
Source organism: Viscum album
UniProt:
  • Canonical: P81446 (Residues: 34-287; Coverage: 48%)
Sequence domains: Ribosome inactivating protein
Structure domains:
Beta-galactoside-specific lectin 1 chain B Chain: B
Molecule details ›
Chain: B
Length: 263 amino acids
Theoretical weight: 28.95 KDa
Source organism: Viscum album
UniProt:
  • Canonical: P81446 (Residues: 302-563; Coverage: 49%)
Sequence domains: Ricin-type beta-trefoil lectin domain
Structure domains: Trefoil (Acidic Fibroblast Growth Factor, subunit A)

Ligands and Environments

4 bound ligands:
Ligand PO4 1 x PO4
Ligand AZI 9 x AZI
Ligand GOL 8 x GOL
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE BW7B
Spacegroup: P6522
Unit cell:
a: 107.285Å b: 107.285Å c: 311.773Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.163 0.16 0.223

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