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Literature summary extracted from

  • Lee, H.J.; Kim, J.M.; Lee, S.H.; Park, M.; Lee, K.; Madsen, E.L.; Jeon, C.O.
    Gentisate 1,2-dioxygenase, in the third naphthalene catabolic gene cluster of Polaromonas naphthalenivorans CJ2, has a role in naphthalene degradation (2011), Microbiology, 157, 2891-2903.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
1.13.11.4 genes nagI1, nagI2, and nagI3, the latter encoded in the third cluster, nagl3 is polycistronic and is expressed at a relatively high level, genetic organization, DNA and amino acid sequence determination and analysis, real-time RT-PCR for gene expression analysis of genes nagI1, nagI2 and nagI3 and the third catabolic gene cluster, overview. Overexpression of all three genes in Escherichia coli strain BL21(DE3). The transformation efficiency of the pET21bnagI1 ligation product is very low compared with that of the nagI2 and nagI3 genes Polaromonas naphthalenivorans

Protein Variants

EC Number Protein Variants Comment Organism
1.13.11.4 additional information construction of individual knockout mutants of all three nagI genes via 2 bp unmarked gene deletion mutagenesis, all three nagI knockout mutants still contain stop codons within their nagI genes. Mutant CJ2DELTAnagI3 shows severely diminished GDO activity and grows slowest on aromatic substrates Polaromonas naphthalenivorans

General Stability

EC Number General Stability Organism
1.13.11.4 purified GDO proteins NagI2 and NagI3 are highly unstable in phosphate buffer without ferrous ions Polaromonas naphthalenivorans

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
1.13.11.4 Fe2+ purified GDO proteins NagI2 and NagI3 are highly unstable in phosphate buffer without ferrous ions Polaromonas naphthalenivorans

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
1.13.11.4 2,5-dihydroxybenzoate + O2 Polaromonas naphthalenivorans
-
 maleylpyruvate
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
1.13.11.4 Polaromonas naphthalenivorans
-
 three nagl genes, nagI1, nagI2, and nagI3, the latter belongs to the third cluster
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.13.11.4 recombinant Nagl2 and Nagl3 isozymes from Escherichia coli strain BL21(DE3) by gel filtration and sequential anion exchange chromatography Polaromonas naphthalenivorans

Source Tissue

EC Number Source Tissue Comment Organism Textmining
1.13.11.4 culture condition:naphthalene-grown cell
-
 Polaromonas naphthalenivorans
-
1.13.11.4 additional information growth rate of wild-type strain CJ2 and three nagI knockout mutants on six different agar media, overview Polaromonas naphthalenivorans
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.13.11.4 2,5-dihydroxybenzoate + O2
-
 Polaromonas naphthalenivorans maleylpyruvate
-
 ?

Subunits

EC Number Subunits Comment Organism
1.13.11.4 dimer 2 * 36000-39000 Polaromonas naphthalenivorans

Synonyms

EC Number Synonyms Comment Organism
1.13.11.4 GDO
-
 Polaromonas naphthalenivorans
1.13.11.4 Nagl1
-
 Polaromonas naphthalenivorans
1.13.11.4 Nagl2
-
 Polaromonas naphthalenivorans
1.13.11.4 Nagl3
-
 Polaromonas naphthalenivorans

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
1.13.11.4 50
-
 isozyme Nagl2 Polaromonas naphthalenivorans
1.13.11.4 65
-
 isozyme Nagl3 Polaromonas naphthalenivorans

Temperature Range [°C]

EC Number Temperature Minimum [°C] Temperature Maximum [°C] Comment Organism
1.13.11.4 25 50 isozyme Nagl2, 74.1% activity at 25°C, maximum activity at 50°C Polaromonas naphthalenivorans
1.13.11.4 25 65 isozyme Nagl4, 72.4% activity at 25°C, maximum activity at 65°C Polaromonas naphthalenivorans

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
1.13.11.4 7.8
-
 isozyme Nagl3 Polaromonas naphthalenivorans
1.13.11.4 8
-
 isozyme Nagl2 Polaromonas naphthalenivorans

pH Range

EC Number pH Minimum pH Maximum Comment Organism
1.13.11.4 5 9.4 activity range, isozymes Nagl2 and Nagl3 Polaromonas naphthalenivorans

pI Value

EC Number Organism Comment pI Value Maximum pI Value
1.13.11.4 Polaromonas naphthalenivorans about, isozymes Nagl2 and Nagl3, isoelectric focusing
-
 5.4
1.13.11.4 Polaromonas naphthalenivorans isozyme Nagl1, sequence calculation
-
 6.8

Expression

EC Number Organism Comment Expression
1.13.11.4 Polaromonas naphthalenivorans nagl3 gene expression is induced by salicylate in wild-type strain CJ2 but not in the nagR knockout mutant strain CJN110 up

General Information

EC Number General Information Comment Organism
1.13.11.4 metabolism strain CJ2 metabolizes naphthalene via the gentisate pathway using gentisate 1,2-dioxygenase, patterns in regulation, transcription and enzyme activity, overview. The nagR regulator controls the third catabolic gene cluster Polaromonas naphthalenivorans
1.13.11.4 physiological function although all three nagI genes in strain CJ2 influence naphthalene degradation, the nagI3 gene plays the most significant role. NagI3 may prevent toxic intracellular levels of gentisate from accumulating in CJ2 cells Polaromonas naphthalenivorans