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 | Comment | Organism |
---|---|---|
additional information | generation of desV disruption mutants | Sphingobium sp. SYK-6 |
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 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 | 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 | UniProt | Comment | Textmining |
---|---|---|---|
Sphingobium sp. SYK-6 | G2IKV5 | - |
- |
Sphingobium sp. SYK-6 | G2IMC6 | - |
- |
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 | Comment | Organism | Textmining |
---|---|---|---|
additional information | gene ligV is most highly and constitutively transcribed in the SYK-6 cells | Sphingobium sp. SYK-6 | - |
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 | 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 | 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 | 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 Maximum [°C] | Comment | Organism |
---|---|---|---|
50 | - |
- |
Sphingobium sp. SYK-6 |
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 Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
10 | - |
- |
Sphingobium sp. SYK-6 |
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 | 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 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 |