4HM3

Naphthalene 1,2-Dioxygenase bound to ethylbenzene


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Naphthalene 1,2-Dioxygenase bound to ethylbenzene

Ferraro, D.J.Ramaswamy, S.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Naphthalene 1,2-dioxygenase subunit alphaA449Pseudomonas sp. C18Mutation(s): 0 
Gene Names: doxBNC_004999.1
EC: 1.14.12.12
Find proteins for P0A111 (Pseudomonas sp. (strain C18))
Explore P0A111 
Go to UniProtKB:  P0A111
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Naphthalene 1,2-dioxygenase subunit betaB194Pseudomonas sp. C18Mutation(s): 0 
Gene Names: doxDNC_004999.1
EC: 1.14.12.12
Find proteins for P0A113 (Pseudomonas sp. (strain C18))
Explore P0A113 
Go to UniProtKB:  P0A113
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FES
Query on FES

Download Ideal Coordinates CCD File 
F [auth A]FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
PYJ
Query on PYJ

Download Ideal Coordinates CCD File 
H [auth A]PHENYLETHANE
C8 H10
YNQLUTRBYVCPMQ-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
E [auth A], K [auth A], O [auth B], P [auth B]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
C [auth A], D [auth A], I [auth A], J [auth A], L [auth B], M [auth B], N [auth B], Q [auth B]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
FE
Query on FE

Download Ideal Coordinates CCD File 
G [auth A]FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 139.94α = 90
b = 139.94β = 90
c = 208.253γ = 120
Software Package:
Software NamePurpose
d*TREKdata reduction
PHENIXrefinement
PDB_EXTRACTdata extraction
d*TREKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-10-30
    Type: Initial release
  • Version 1.1: 2013-12-25
    Changes: Advisory