2HMN

Crystal Structure of the Naphthalene 1,2-Dioxygenase F352V Mutant Bound to Anthracene.

Structural Biology Knowledgebase: 2HMN SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.159

Literature

Macromolecules
Sequence Display for 2HMN

Classification: Oxidoreductase

Total Structure Weight: 74593.49

Macromolecule Entities
Molecule Chains Length Organism Details
Naphthalene 1,2-dioxygenase alpha subunit A 449 Pseudomonas sp. EC#: 1.14.12.12 IUBMB
Mutation: F352V
Gene Name(s): doxB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Naphthalene 1,2-dioxygenase beta subunit B 194 Pseudomonas sp. EC#: 1.14.12.12 IUBMB
Gene Name(s): doxD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AN3
Query on AN3

A ANTHRACENE
C14 H10
MWPLVEDNUUSJAV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FES
Query on FES

A FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-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: 1.7 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.159
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 139.46 α = 90.00
b = 139.46 β = 90.00
c = 208.22 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-07-11
  • Released Date: 2006-10-10
  • Deposition author(s): Ferraro, D.J., Okerlund, A.L., Mowers, J.C., Ramaswamy, S.

Revision History

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