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Literature summary extracted from
- Purification and characterization of two enantioselective alpha-ketoglutarate-dependent dioxygenases, RdpA and SdpA, from Sphingomonas herbicidovorans MH (2006), Appl. Environ. Microbiol., 72, 4853-4861.
Activating Compound
| EC Number | Activating Compound | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.11.43 | ascorbate | slightly reduced in the absence of ascorbate | Sphingobium herbicidovorans |  |
| 1.14.11.44 | ascorbate | slightly reduced activity in the absence of ascorbate | Sphingobium herbicidovorans | |
Cloned(Commentary)
| EC Number | Cloned (Comment) | Organism |
|---|---|---|
| 1.14.11.43 | expressed as His6-tagged fusion protein from Escherichia coli BL21(DE3)(pLysS) | Sphingobium herbicidovorans |
| 1.14.11.44 | expressed as His6-tagged fusion protein from Escherichia coli BL21(DE3)(pLysS) | Sphingobium herbicidovorans |
General Stability
| EC Number | General Stability | Organism |
|---|---|---|
| 1.14.11.43 | storage on ice and freeze-thaw cycles reduce the activity to about 80% of the original activity | Sphingobium herbicidovorans |
| 1.14.11.44 | inactivated by several freezing and thawing cycles | Sphingobium herbicidovorans |
Inhibitors
| EC Number | Inhibitors | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.11.43 | (S)-2-(2,4-dichlorophenoxy)propanoate | slight inhibition | Sphingobium herbicidovorans | |
| 1.14.11.43 | (S)-2-(4-chloro-2-methylphenoxy)propanoate | slight inhibition | Sphingobium herbicidovorans | |
KM Value [mM]
| EC Number | KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 1.14.11.43 | 0.0196 | - |
2-oxoglutarate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
| 1.14.11.43 | 0.132 | - |
(S)-2-(4-chloro-2-methylphenoxy)propanoate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
| 1.14.11.43 | 0.159 | - |
O2 | pH 6.8, 30°C, above 0.23 mM | Sphingobium herbicidovorans | |
| 1.14.11.43 | 0.495 | - |
(S)-(2,4-dichlorophenoxy)propanoate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
| 1.14.11.44 | 0.003 | - |
2-oxoglutarate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
| 1.14.11.44 | 0.099 | - |
(R)-2-(4-chloro-2-methylphenoxy)propanoate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
| 1.14.11.44 | 0.164 | - |
(R)-(2,4-dichlorophenoxy)propanoate | pH 6.8, 30°C | Sphingobium herbicidovorans | |
Metals/Ions
| EC Number | Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.14.11.43 | Fe2+ | ferrous iron is necessary for activity of the enzyme and other divalent cations could not replace it | Sphingobium herbicidovorans | |
| 1.14.11.44 | Fe2+ | ferrous iron is necessary for activity of the enzyme, and other divalent cations could not replace it | Sphingobium herbicidovorans | |
Molecular Weight [Da]
| EC Number | Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 32000 | - |
gel filtration | Sphingobium herbicidovorans |
| 1.14.11.43 | 33700 | - |
1 * 33700, calculated from sequence | Sphingobium herbicidovorans |
| 1.14.11.44 | 34900 | - |
3 * 34900, calculated from sequence | Sphingobium herbicidovorans |
| 1.14.11.44 | 36000 | - |
3 * 36000, SDs-PAGE | Sphingobium herbicidovorans |
| 1.14.11.44 | 104000 | - |
gel filtration | Sphingobium herbicidovorans |
Natural Substrates/ Products (Substrates)
| EC Number | Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.14.11.43 | (R)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | Sphingobium herbicidovorans | i.e. (S)-dichlorprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH. SdpA activity is completely absent in the absence of 2-oxoglutarate | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.43 | (R)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | Sphingobium herbicidovorans | i.e. (S)-mecoprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH. SdpA activity is completely absent in the absence of 2-oxoglutarate | 2-methyl-4-chlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | Sphingobium herbicidovorans | i.e. (R)-dichlorprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | Sphingobium herbicidovorans | i.e. (R)-mecoprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | 4-chloro-2-methylphenol + pyruvate + succinate + CO2 | - |
? | |
Organism
| EC Number | Organism | UniProt | Comment | Textmining |
|---|---|---|---|---|
| 1.14.11.43 | Sphingobium herbicidovorans | Q700X4 | - |
- |
| 1.14.11.44 | Sphingobium herbicidovorans | Q8KSC8 | - |
- |
Purification (Commentary)
| EC Number | Purification (Comment) | Organism |
|---|---|---|
| 1.14.11.43 | - |
Sphingobium herbicidovorans |
| 1.14.11.44 | - |
Sphingobium herbicidovorans |
Storage Stability
| EC Number | Storage Stability | Organism |
|---|---|---|
| 1.14.11.43 | 4°C, 3 days, less than 10% loss of activity | Sphingobium herbicidovorans |
| 1.14.11.44 | 4°C, stable for up to 8 weeks | Sphingobium herbicidovorans |
Substrates and Products (Substrate)
| EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.14.11.43 | (R)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (S)-dichlorprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH. SdpA activity is completely absent in the absence of 2-oxoglutarate | Sphingobium herbicidovorans | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.43 | (R)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (S)-mecoprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH. SdpA activity is completely absent in the absence of 2-oxoglutarate | Sphingobium herbicidovorans | 2-methyl-4-chlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.43 | (S)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (S)-dichlorprop. SdpA is specific for the (S) enantiomer | Sphingobium herbicidovorans | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.43 | (S)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (S)-mecoprop. SdpA is specific for the (S) enantiomer. The enzyme is specific for 2-oxoglutarate. Low levels of activity (1.9%) in presence of 2-oxoadipate. No activity with oxaloacetate, 2-oxobutyrate, and 2-oxovalerate | Sphingobium herbicidovorans | 4-chloro-2-methylphenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (R)-dichlorprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | Sphingobium herbicidovorans | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-(2,4-dichlorophenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (R)-dichlorprop. RdpA exclusively transforms the (R)-enantiomer of dichlorprop | Sphingobium herbicidovorans | 2,4-dichlorophenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (R)-mecoprop, the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | Sphingobium herbicidovorans | 4-chloro-2-methylphenol + pyruvate + succinate + CO2 | - |
? | |
| 1.14.11.44 | (R)-2-(4-chloro-2-methylphenoxy)propanoate + 2-oxoglutarate + O2 | i.e. (R)-mecoprop. RdpA exclusively transforms the (R)-enantiomer of mecoprop. The enzyme is specific for 2-oxoglutarate. Low levels of activity (1.9%) in presence of 2-oxoadipate. No activity with oxaloacetate, 2-oxobutyrate, and 2-oxovalerate | Sphingobium herbicidovorans | 4-chloro-2-methylphenol + pyruvate + succinate + CO2 | - |
? | |
Subunits
| EC Number | Subunits | Comment | Organism |
|---|---|---|---|
| 1.14.11.43 | monomer | 1 * 32000, SDS-PAGE | Sphingobium herbicidovorans |
| 1.14.11.43 | monomer | 1 * 33700, calculated from sequence | Sphingobium herbicidovorans |
| 1.14.11.44 | trimer | 3 * 36000, SDs-PAGE | Sphingobium herbicidovorans |
| 1.14.11.44 | trimer | 3 * 34900, calculated from sequence | Sphingobium herbicidovorans |
Synonyms
| EC Number | Synonyms | Comment | Organism |
|---|---|---|---|
| 1.14.11.43 | 2-oxoglutarate-dependent (S)-dichlorprop dioxygenase | - |
Sphingobium herbicidovorans |
| 1.14.11.43 | alpha-ketoglutarate-dependent (S)-dichlorprop dioxygenase | - |
Sphingobium herbicidovorans |
| 1.14.11.43 | SdpA | - |
Sphingobium herbicidovorans |
| 1.14.11.44 | 2-oxoglutarate-dependent (R)-dichlorprop dioxygenase | - |
Sphingobium herbicidovorans |
| 1.14.11.44 | alpha-ketoglutarate-dependent (R)-dichlorprop dioxygenase | - |
Sphingobium herbicidovorans |
| 1.14.11.44 | RdpA | - |
Sphingobium herbicidovorans |
Temperature Optimum [°C]
| EC Number | Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 35 | 40 | - |
Sphingobium herbicidovorans |
Temperature Range [°C]
| EC Number | Temperature Minimum [°C] | Temperature Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 20 | 45 | 20°C: about 40% of maximal activity, 35-40°C: optimal activity | Sphingobium herbicidovorans |
Temperature Stability [°C]
| EC Number | Temperature Stability Minimum [°C] | Temperature Stability Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 22 | - |
stable for several hours | Sphingobium herbicidovorans |
| 1.14.11.44 | 20 | 55 | stable | Sphingobium herbicidovorans |
| 1.14.11.44 | 22 | - |
stable for up to 7 days | Sphingobium herbicidovorans |
pH Optimum
| EC Number | pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 6.5 | - |
- |
Sphingobium herbicidovorans |
| 1.14.11.44 | 6.5 | - |
- |
Sphingobium herbicidovorans |
pH Range
| EC Number | pH Minimum | pH Maximum | Comment | Organism |
|---|---|---|---|---|
| 1.14.11.43 | 6 | 7.5 | pH 6.0: about 30% of maximal activity, pH 7.5: about 50% of maximal activity | Sphingobium herbicidovorans |
| 1.14.11.44 | 6 | 7.5 | pH 6.0: about 60% of maximal activity, pH 7.5: about 55% of maximal activity | Sphingobium herbicidovorans |
General Information
| EC Number | General Information | Comment | Organism |
|---|---|---|---|
| 1.14.11.43 | physiological function | the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | Sphingobium herbicidovorans |
| 1.14.11.44 | physiological function | the enzyme is involved in the degradation of phenoxyalkanoic acid herbicides in Sphingomonas herbicidovorans MH | Sphingobium herbicidovorans |
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