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Literature summary for 1.2.1.67 extracted from

  • Kamimura, N.; Goto, T.; Takahashi, K.; Kasai, D.; Otsuka, Y.; Nakamura, M.; Katayama, Y.; Fukuda, M.; Masai, E.
    A bacterial aromatic aldehyde dehydrogenase critical for the efficient catabolism of syringaldehyde (2017), Sci. Rep., 7, 44422 .
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
gene desV or SLG_28320, DNA and amino acid sequence determination and analysis, phylogenetic analysis, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3), recombinant expression of desV disruption mutants Sphingobium sp. SYK-6
gene ligV or SLG_07060, DNA and amino acid sequence determination and analysis, phylogenetic analysis, recombinant expression of His-tagged enzyme in Escherichia coli BL21(DE3) Sphingobium sp. SYK-6

Protein Variants

Protein Variants Comment Organism
additional information generation of desV disruption mutants Sphingobium sp. SYK-6

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.00034
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.00047
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.00048
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.412
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
120000
-
recombinant enzyme, gel filtration and native PAGE Sphingobium sp. SYK-6
220000
-
recombinant enzyme, gel filtration and native PAGE Sphingobium sp. SYK-6

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
syringaldehyde + NAD+ + H2O Sphingobium sp. SYK-6 from syringyl lignin degradation of hardwood syringate + NADH + H+
-
?
syringaldehyde + NAD+ + H2O Sphingobium sp. SYK-6 very low activity, from syringyl lignin degradation of hardwood syringate + NADH + H+
-
?
vanillin + NAD+ + H2O Sphingobium sp. SYK-6 from guaiacol lignin degradation of softwood vanillate + NADH + 2 H+
-
?

Organism

Organism UniProt Comment Textmining
Sphingobium sp. SYK-6 G2IKV5
-
-
Sphingobium sp. SYK-6 G2IMC6
-
-

Purification (Commentary)

Purification (Comment) Organism
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography and ultrafiltration Sphingobium sp. SYK-6

Source Tissue

Source Tissue Comment Organism Textmining
additional information gene ligV is most highly and constitutively transcribed in the SYK-6 cells Sphingobium sp. SYK-6
-

Specific Activity [micromol/min/mg]

Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
0.05
-
substrate coniferyl aldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.13
-
substrate veratraldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.36
-
substrate syringaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.65
-
substrate m-anisaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.98
-
substrate 4-hydroxybenzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.04
-
substrate salicylaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.24
-
substrate protocatechualdehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.26
-
substrate benzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.38
-
substrate veratraldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.57
-
substrate vanillin, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.64
-
substrate benzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.68
-
substrate protocatechualdehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.8
-
substrate syringaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.8
-
substrate vanillin, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1.9
-
substrate 4-hydroxybenzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
2.09
-
substrate 3-hydroxybenzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
2.12
-
substrate coniferyl aldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
2.12
-
substrate salicylaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
2.22
-
substrate m-anisaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
4.39
-
substrate 3-hydroxybenzaldehyde, purified recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3-hydroxybenzaldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 3-hydroxybenzoate + NADH + 2 H+
-
?
4-hydroxybenzaldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 4-hydroxybenzoate + NADH + 2 H+
-
?
benzaldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 benzoate + NADH + 2 H+
-
?
coniferyl aldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 ferulic acid + NADH + 2 H+
-
?
m-anisaldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 m-anisate + NADH + 2 H+
-
?
additional information enzyme DesV shows a broad range of activity against benzaldehyde derivatives, substrate specificity, overview Sphingobium sp. SYK-6 ?
-
?
additional information enzyme LigV shows a broad range of activity against benzaldehyde derivatives, substrate specificity, overview Sphingobium sp. SYK-6 ?
-
?
protocatechualdehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 protocatechuate + NADH + 2 H+
-
?
salicylaldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 salicylate + NADH + 2 H+
-
?
syringaldehyde + NAD+ + H2O very low activity Sphingobium sp. SYK-6 syringate + NADH + H+
-
?
syringaldehyde + NAD+ + H2O high activity Sphingobium sp. SYK-6 syringate + NADH + H+
-
?
syringaldehyde + NAD+ + H2O from syringyl lignin degradation of hardwood Sphingobium sp. SYK-6 syringate + NADH + H+
-
?
syringaldehyde + NAD+ + H2O very low activity, from syringyl lignin degradation of hardwood Sphingobium sp. SYK-6 syringate + NADH + H+
-
?
syringaldehyde + NADP+ + H2O high activity Sphingobium sp. SYK-6 syringate + NADPH + H+
-
?
vanillin + NAD+ + H2O
-
Sphingobium sp. SYK-6 vanillate + NADH + 2 H+
-
?
vanillin + NAD+ + H2O best substrate Sphingobium sp. SYK-6 vanillate + NADH + 2 H+
-
?
vanillin + NAD+ + H2O from guaiacol lignin degradation of softwood Sphingobium sp. SYK-6 vanillate + NADH + 2 H+
-
?
veratraldehyde + NAD+ + H2O
-
Sphingobium sp. SYK-6 veratrate + NADH + H+
-
?

Subunits

Subunits Comment Organism
dimer 2 * 55173, recombinant enzyme, SDS-PAGE Sphingobium sp. SYK-6
tetramer 4 * 52879, recombinant enzyme, SDS-PAGE Sphingobium sp. SYK-6

Synonyms

Synonyms Comment Organism
ALDH
-
Sphingobium sp. SYK-6
aromatic aldehyde dehydrogenase
-
Sphingobium sp. SYK-6
DesV
-
Sphingobium sp. SYK-6
DesV-like ALDH
-
Sphingobium sp. SYK-6
LigV
-
Sphingobium sp. SYK-6
SLG_07060
-
Sphingobium sp. SYK-6
SLG_28320
-
Sphingobium sp. SYK-6
SN dehydrogenase
-
Sphingobium sp. SYK-6
syringaldehyde dehydrogenase
-
Sphingobium sp. SYK-6
VN dehydrogenase
-
Sphingobium sp. SYK-6

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
50
-
-
Sphingobium sp. SYK-6

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.59
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.79
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
0.99
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
3.03
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
10
-
-
Sphingobium sp. SYK-6

Cofactor

Cofactor Comment Organism Structure
additional information DesV can oxidize SN in the presence of either NAD+ or NADP+;, but the specific activity is 7.3fold higher with NAD+ compared to NADP+ Sphingobium sp. SYK-6
additional information LigV specifically requires NAD+, no activity with NADP+ Sphingobium sp. SYK-6
NAD+
-
Sphingobium sp. SYK-6
NADP+
-
Sphingobium sp. SYK-6

General Information

General Information Comment Organism
evolution DesV-like ALDHs form a distinct phylogenetic cluster separated from the vanillin dehydrogenase cluster, phylogenetic analyis Sphingobium sp. SYK-6
malfunction disruption of desV in SYK-6 results in a significant reduction in growth on syringaldehyde and in syringaldehyde oxidation activity. A desV-ligV double mutant almost completely loses its ability to grow on syringaldehyde. Purified DesV shows similar kcat/Km values for syringaldehyde and vanillin, whereas LigV substantially prefers vanillin over syringaldehyde Sphingobium sp. SYK-6
physiological function enzyme DesV plays a major role in syringaldehyde catabolism Sphingobium sp. SYK-6

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
1.4
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
1700
-
syringaldehyde recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
2100
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6
8800
-
Vanillin recombinant enzyme, pH 7.0, 30°C Sphingobium sp. SYK-6