› 4eb2

X-ray diffraction
1.94Å resolution

Crystal structure Mistletoe Lectin I from Viscum album in complex with n-acetyl-d-glucosamine at 1.94 A resolution.

Released:
DOI: 10.2210/pdb4eb2/pdb
PDB entry 4eb2 coloured by chain, front view.
PDB entry 4eb2 coloured by chain, side view.
PDB entry 4eb2 coloured by chain, top view.
Source organism: Viscum album
Entry authors: Laskov AA, Prokofev II, Gabdoulkhakov AG, 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 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 (3 distinct):
Beta-galactoside-specific lectin 1 chain A isoform 1 Chain: A
Molecule details ›
Chain: A
Length: 249 amino acids
Theoretical weight: 27.3 KDa
Source organism: Viscum album
UniProt:
  • Canonical: P81446 (Residues: 34-282; Coverage: 47%)
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: 28.41 KDa
Source organism: Viscum album
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
Carbohydrate polymer
7 bound ligands:
Ligand NAG 3 x NAG
Ligand SO4 2 x SO4
Ligand GOL 7 x GOL
Ligand EDO 5 x EDO
Ligand CL 1 x CL
Ligand PEG 7 x PEG
Ligand AZI 1 x AZI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Spacegroup: P6522
Unit cell:
a: 107.058Å b: 107.058Å c: 311.201Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.183 0.18 0.226

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