3D2J

Structure of berberine bridge enzyme from Eschscholzia californica, tetragonal crystal form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 3D2J

Classification: OXIDOREDUCTASE

Total Structure Weight: 61700.62

Macromolecule Entities
Molecule Chains Length Organism Details
berberine bridge-forming enzyme A 538 Eschscholzia californica EC#: 1.21.3.3 IUBMB
Gene Name(s): BBE1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FAD
Query on FAD

A FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.184
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 68.52 α = 90.00
b = 68.52 β = 90.00
c = 246.28 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-08
  • Released Date: 2008-10-28
  • Deposition author(s): Winkler, A., Lyskowski, A., Macheroux, P., Gruber, K.

Revision History

  • Version 1_0: 2008-10-28

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Non-polymer description, Version format compliance