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Literature summary for 1.13.11.4 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)

Cloned (Comment) Organism
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

Protein Variants Comment Organism
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

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

Metals/Ions

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

Natural Substrates/ Products (Substrates)

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

Organism

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

Purification (Commentary)

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

Source Tissue

Source Tissue Comment Organism Textmining
culture condition:naphthalene-grown cell
-
Polaromonas naphthalenivorans
-
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)

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

Subunits

Subunits Comment Organism
dimer 2 * 36000-39000 Polaromonas naphthalenivorans

Synonyms

Synonyms Comment Organism
GDO
-
Polaromonas naphthalenivorans
Nagl1
-
Polaromonas naphthalenivorans
Nagl2
-
Polaromonas naphthalenivorans
Nagl3
-
Polaromonas naphthalenivorans

Temperature Optimum [°C]

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

Temperature Range [°C]

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

pH Optimum

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

pH Range

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

pI Value

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

Expression

Organism Comment Expression
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

General Information Comment Organism
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
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