3D2H

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.186
  • R-Value Work: 0.155

Literature

Macromolecules
Sequence Display for 3D2H

Classification: OXIDOREDUCTASE

Total Structure Weight: 63020.35

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
FSH
Query on FSH

A (2R,3S,4S)-5-[(4R)-6',7'-dimethyl-2,3',5- trioxo-1'H-spiro[imidazolidine-4,2'-quinoxalin]- 4'(3'H)-yl]-2,3,4-trihydroxypentyl-adenosine diphosphate
C27 H35 N9 O16 P2
HUPQKJNMCVRMPP-QUWWARRSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.186
  • R-Value Work: 0.155
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 99.91 α = 90.00
b = 94.84 β = 100.31
c = 63.98 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