› 2r9k

X-ray diffraction
2.7Å resolution

Crystal Structure of Misteltoe Lectin I in Complex with Phloretamide

Released:
DOI: 10.2210/pdb2r9k/pdb
PDB entry 2r9k coloured by chain, front view.
PDB entry 2r9k coloured by chain, side view.
PDB entry 2r9k coloured by chain, top view.
Source organism: Viscum album
Primary publication:
The mistletoe lectin I--phloretamide structure reveals a new function of plant lectins.
Meyer A, Rypniewski W, Celewicz L, Erdmann VA, Voelter W, Singh TP, Genov N, Barciszewski J, Betzel Ch
Biochem Biophys Res Commun 364 195-200 (2007)
PMID: 17937929

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 dimer (preferred)
hetero tetramer
Assembly name:
PDBe Complex ID:
PDB-CPX-160520 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Beta-galactoside-specific lectin 1 chain A isoform 1 Chain: A
Molecule details ›
Chain: A
Length: 254 amino acids
Theoretical weight: 27.82 KDa
Source organism: Viscum album
Expression system: Not provided
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: 28.57 KDa
Source organism: Viscum album
Expression system: Not provided
UniProt:
  • Canonical: P81446 (Residues: 302-564; Coverage: 50%)
Sequence domains: Ricin-type beta-trefoil lectin domain
Structure domains: Trefoil (Acidic Fibroblast Growth Factor, subunit A)

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Ligand NAG 2 x NAG
5 bound ligands:
Ligand NAG 4 x NAG
Ligand SO4 4 x SO4
Ligand GOL 4 x GOL
Ligand CL 1 x CL
Ligand SGI 1 x SGI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Spacegroup: P6522
Unit cell:
a: 107.059Å b: 107.059Å c: 312.375Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.228 0.226 0.267
Expression system: Not provided

Quick links

Citations

1 review citation

The Antioxidant Activity of Mistletoes (Viscum album and Other Species).
Nicoletti M. (2023)
5 other articles