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MetaCyc Enzyme: nitrobenzene dioxygenase

Species: Comamonas sp. JS765

Subunit composition of nitrobenzene dioxygenase = [NbzAa][NbzAb][(NbzAc)3(NbzAd)3]
         reductaseNBZ = NbzAa
         ferredoxinNBZ = NbzAb
         oxygenaseNBZ = (NbzAc)3(NbzAd)3
                 oxygenaseNBZα = NbzAc
                 oxygenaseNBZβ = NbzAd

Summary:
Comamonas sp. JS765 can grow with nitrobenzene as the sole source of carbon, nitrogen, and energy. A key enzyme in this pathway is the nitrobenzene dioxygenase (NBDO), which catalyzes the first step in the degradation of nitrobenzene by strain JS765.

NBDO consists of three components: a reductaseNBZ, a ferredoxinNBZ (encoded by the nbzAa and nbzAb genes, respectively) and an oxygenaseNBZ. The oxygenaseNBZ is a hexamer composed of three subunits each of an oxygenaseNBZα and an oxygenaseNBZβ, encoded by the genes nbzAc, and nbzAd, respectively [Parales05]. Sequence analysis showed that the components of NBDO have a high level of homology with the naphthalene family of Rieske nonheme iron oxygenases, and in particular to the 2-nitrotoluene dioxygenase from Acidovorax sp. JS42. The enzyme oxidizes a wide range of substrates, and relative reaction rates with partially purified oxygenaseNBZ revealed a preference for 3-nitrotoluene, which is a growth substrate for strain JS765 [Lessner02]

Gene-Reaction Schematic: ?

Credits:
Created 02-Dec-2004 by Caspi R , SRI International


Enzymatic reaction of: 3-nitrotoluene 1,2-dioxygenase (nitrobenzene dioxygenase)

3-nitrotoluene + NADH + oxygen <=> 4-methylcatechol + nitrite + NAD+

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction in which it was curated.

Reversibility of this reaction is unspecified.

Summary:
The enzyme could oxidize 3-nitrotoluene with relative activity of 221% compared with its nitrobenzene dioxygenase activity [Lessner02].

Cofactors or Prosthetic Groups: FAD [Parales05], [2Fe-2S] iron-sulfur cluster [Parales05]


Enzymatic reaction of: naphthalene 1,2-dioxygenase (nitrobenzene dioxygenase)

EC Number: 1.14.12.12

naphthalene + NADH + H+ + oxygen <=> cis naphthalene dihydrodiol + NAD+

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the Enzyme Commission system.

The reaction is physiologically favored in the direction shown.

Summary:
The enzyme could oxidize naphthalene with relative activity of 59% compared with its nitrobenzene dioxygenase activity [Lessner02].

Cofactors or Prosthetic Groups: FAD [Parales05], [2Fe-2S] iron-sulfur cluster [Parales05]


Enzymatic reaction of: nitrobenzene dioxygenase

Synonyms: nitrobenzene 1,2-dioxygenase, NBDO

nitrobenzene + H+ + oxygen <=> catechol + nitrite

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction of enzyme catalysis.

The reaction is irreversible in the direction shown.

Alternative Substrates for nitrobenzene: naphthalene [Parales05 ] , 1,3-dinitrobenzene [Parales05 ] , 4-nitrotoluene [Parales05 ] , 3-nitrotoluene [Parales05 ] , 2-nitrotoluene [Parales05 ]

In Pathways: nitrobenzene degradation II

Cofactors or Prosthetic Groups: FAD [Parales05], [2Fe-2S] iron-sulfur cluster [Parales05]


Subunit of nitrobenzene dioxygenase: reductaseNBZ

Gene: nbzAa Accession Number: G-3921 (MetaCyc)

MultiFun Terms: metabolism carbon utilization carbon compounds


Subunit of nitrobenzene dioxygenase: ferredoxinNBZ

Gene: nbzAb Accession Number: G-3922 (MetaCyc)

Molecular Weight: 14.762 kD (from nucleotide sequence)

Molecular Weight: 11.5 kD (experimental) [Parales05]

MultiFun Terms: metabolism carbon utilization carbon compounds

Unification Links: Protein Model Portal:Q8RTL5 , UniProt:Q8RTL5

Relationship Links: InterPro:IN-FAMILY:IPR017941 , Pfam:IN-FAMILY:PF00355 , Prosite:IN-FAMILY:PS51296


Subunit of nitrobenzene dioxygenase: oxygenaseNBZ

Synonyms: nirtobenzene dioxygenase oxygenase component

Molecular Weight: 215.9 kD (experimental) [Parales05]


Subunit of oxygenaseNBZ: oxygenaseNBZα

Gene: nbzAc Accession Number: G-3923 (MetaCyc)

Molecular Weight: 49.557 kD (from nucleotide sequence)

Molecular Weight: 51.2 kD (experimental) [Parales05]

MultiFun Terms: metabolism carbon utilization carbon compounds

Unification Links: DIP:DIP-45324N , Protein Model Portal:Q8RTL4 , SMR:Q8RTL4 , UniProt:Q8RTL4

Relationship Links: InterPro:IN-FAMILY:IPR001663 , InterPro:IN-FAMILY:IPR015879 , InterPro:IN-FAMILY:IPR015881 , InterPro:IN-FAMILY:IPR017941 , PDB:Structure:2BMO , PDB:Structure:2BMQ , PDB:Structure:2BMR , Pfam:IN-FAMILY:PF00355 , Pfam:IN-FAMILY:PF00848 , Prints:IN-FAMILY:PR00090 , Prosite:IN-FAMILY:PS00570 , Prosite:IN-FAMILY:PS51296


Subunit of oxygenaseNBZ: oxygenaseNBZβ

Gene: nbzAd Accession Number: G-3924 (MetaCyc)

Molecular Weight: 23.086 kD (from nucleotide sequence)

Molecular Weight: 25.3 kD (experimental) [Parales05]

MultiFun Terms: metabolism carbon utilization carbon compounds

Unification Links: DIP:DIP-45325N , Protein Model Portal:Q8RTL3 , SMR:Q8RTL3 , UniProt:Q8RTL3

Relationship Links: InterPro:IN-FAMILY:IPR000391 , PDB:Structure:2BMO , PDB:Structure:2BMQ , PDB:Structure:2BMR , Pfam:IN-FAMILY:PF00866


References

Lessner02: Lessner DJ, Johnson GR, Parales RE, Spain JC, Gibson DT (2002). "Molecular characterization and substrate specificity of nitrobenzene dioxygenase from Comamonas sp. strain JS765." Appl Environ Microbiol 68(2);634-41. PMID: 11823201

Parales05: Parales RE, Huang R, Yu CL, Parales JV, Lee FK, Lessner DJ, Ivkovic-Jensen MM, Liu W, Friemann R, Ramaswamy S, Gibson DT (2005). "Purification, characterization, and crystallization of the components of the nitrobenzene and 2-nitrotoluene dioxygenase enzyme systems." Appl Environ Microbiol 71(7);3806-14. PMID: 16000792


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
Page generated by SRI International Pathway Tools version 18.5 on Fri Nov 28, 2014, BIOCYC13B.