1LKD

CRYSTAL STRUCTURE OF 2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE (DHBD) COMPLEXED WITH 2',6'-DICL DIHYDROXYBIPHENYL (DHB)

Structural Biology Knowledgebase: 1LKD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 1LKD

Classification: OXIDOREDUCTASE

Total Structure Weight: 33282.05

Macromolecule Entities
Molecule Chains Length Organism Details
BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE A 297 Paraburkholderia xenovorans EC#: 1.13.11.39 IUBMB
Gene Name(s): bphC Bxeno_C1125 Bxe_C1191
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
P6G
Query on P6G

A HEXAETHYLENE GLYCOL
POLYETHYLENE GLYCOL PEG400 (Synonym)
C12 H26 O7
IIRDTKBZINWQAW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BP6
Query on BP6

A 2',6'-DICHLORO-BIPHENYL-2,6-DIOL
C12 H8 Cl2 O2
MCZUCSAAGDCHHN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE2
Query on FE2

A FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.203
  • Space Group: I 4 2 2

Unit Cell:

Length (Å) Angle (°)
a = 122.64 α = 90.00
b = 122.64 β = 90.00
c = 107.23 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-04-24
  • Released Date: 2002-11-27
  • Deposition author(s): Dai, S., Bolin, J.T.

Revision History

  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values