› 3d2d

X-ray diffraction
2.8Å resolution

Structure of berberine bridge enzyme in complex with (S)-reticuline

Released:
DOI: 10.2210/pdb3d2d/pdb
PDB entry 3d2d coloured by chain, front view.
PDB entry 3d2d coloured by chain, side view.
PDB entry 3d2d coloured by chain, top view.
Source organism: Eschscholzia californica
Primary publication:
A concerted mechanism for berberine bridge enzyme.
Winkler A, Lyskowski A, Riedl S, Puhl M, Kutchan TM, Macheroux P, Gruber K
Nat Chem Biol 4 739-41 (2008)
PMID: 18953357

Function and Biology Details

Reaction catalysed: 
(S)-reticuline + O(2) = (S)-scoulerine + H(2)O(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151854 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Reticuline oxidase Chain: A
Molecule details ›
Chain: A
Length: 538 amino acids
Theoretical weight: 60.05 KDa
Source organism: Eschscholzia californica
Expression system: Komagataella pastoris
UniProt:
  • Canonical: P30986 (Residues: 1-21, 24-538; Coverage: 100%)
Gene name: BBE1
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand FAD 1 x FAD
Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
2 bound ligands:
Ligand NAG 1 x NAG
Ligand REN 1 x REN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: C2
Unit cell:
a: 98.938Å b: 93.649Å c: 63.155Å
α: 90° β: 100.62° γ: 90°
R-values:
R R work R free
0.19 0.188 0.241
Expression system: Komagataella pastoris

Quick links

Citations

20 review citations

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Hagel et al. (2013)
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6 mentions without citation

Alteration of Electron Acceptor Preferences in the Oxidative Half-Reaction of Flavin-Dependent Oxidases and Dehydrogenases.
Hiraka et al. (2020)
5 more