1O7P

NAPHTHALENE 1,2-DIOXYGENASE, PRODUCT COMPLEX

Structural Biology Knowledgebase: 1O7P SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 1O7P

Classification: OXIDOREDUCTASE

Total Structure Weight: 73688.55

Macromolecule Entities
Molecule Chains Length Organism Details
NAPHTHALENE 1,2-DIOXYGENASE ALPHA SUBUNIT A 449 Pseudomonas putida EC#: 1.14.12.12 IUBMB
Gene Name(s): ndoB nahA3 nahAC ndoC2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
NAPHTHALENE 1,2-DIOXYGENASE BETA SUBUNIT B 194 Pseudomonas putida EC#: 1.14.12.12 IUBMB
Gene Name(s): ndoC nahAD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FES
Query on FES

A FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NDH
Query on NDH

A (1R, 2S)-CIS 1,2 DIHYDROXY-1,2-DIHYDRONAPHTHALENE
(1R,2S)-1,2-DIHYDRONAPHTHALENE-1,2-DIOL (Synonym)
C10 H10 O2
QPUHWUSUBHNZCG-VHSXEESVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE
Query on FE

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.184
  • Space Group: H 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 139.67 α = 90.00
b = 139.67 β = 90.00
c = 208.44 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-11
  • Released Date: 2003-02-20
  • Deposition author(s): Karlsson, A., Parales, J.V., Parales, R.E., Gibson, D.T., Eklund, H., Ramaswamy, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4