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Literature summary extracted from
- Improving alternate lignin catabolite utilization of LigAB from Sphingobium sp. strain SYK-6 through site directed mutagenesis (2015), Process Biochem., 50, 1634-1639 .
No PubMed abstract available
Activating Compound
| EC Number | Activating Compound | Comment | Organism | Structure |
|---|---|---|---|---|
| 1.13.11.8 | additional information | impact of alpha-subunit Phe103alpha mutations on allosteric activation of alternate substrate dioxygenation by vanillin compared to the wild-type enzyme, overview | Sphingobium sp. | |
| 1.13.11.8 | Vanillin | like the wild-type enzyme, F103T and F103V alpha-subunit point mutants also exhibit allosteric activation for the dioxygenation of protocatechuate and gallate, respectively | Sphingobium sp. |  |
Application
| EC Number | Application | Comment | Organism |
|---|---|---|---|
| 1.13.11.8 | biofuel production | enhanced utilization of substrates by enzyme mutants F103T and F103V makes them potentially useful for efforts to develop engineered organisms that catabolize lignin into biofuels or fine chemicals | Sphingobium sp. |
Protein Variants
| EC Number | Protein Variants | Comment | Organism |
|---|---|---|---|
| 1.13.11.8 | F103T | site-directed mutagenesis, mutation in the alpha-subunit, the mutant shows enhanced utilization of substrates gallate and 3-O-methylgallate, but not of protocatechuate, compared to the wild-type enzyme | Sphingobium sp. |
| 1.13.11.8 | F103V | site-directed mutagenesis, mutation in the alpha-subunit, the mutant shows enhanced utilization of substrates gallate and 3-O-methylgallate, but not of protocatechuate, compared to the wild-type enzyme | Sphingobium sp. |
| 1.13.11.8 | additional information | in silico docking of substrates to the enzyme mutants, and impact of Phe103alpha mutations on allosteric activation of alternate substrate dioxygenation, overview | Sphingobium sp. |
KM Value [mM]
| EC Number | KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 1.13.11.8 | additional information | - |
additional information | Michaelis-Menten steady-state kinetics of wild-type and mutant enzymes | Sphingobium sp. | |
| 1.13.11.8 | 0.051 | - |
protocatechuate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
| 1.13.11.8 | 0.108 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 0.19 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 0.21 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 0.21 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 0.26 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 0.39 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 0.44 | - |
gallate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
| 1.13.11.8 | 0.9 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 0.93 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 1 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 1.6 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
| 1.13.11.8 | 2.3 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
| 1.13.11.8 | 4 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
| 1.13.11.8 | 7 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
Natural Substrates/ Products (Substrates)
| EC Number | Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.13.11.8 | protocatechuate + O2 | Sphingobium sp. | - |
4-carboxy-2-hydroxymuconate semialdehyde | - |
? | |
Organism
| EC Number | Organism | UniProt | Comment | Textmining |
|---|---|---|---|---|
| 1.13.11.8 | Sphingobium sp. | G2IQQ4 AND G2IQQ3 | alpha- and beta-chain of LigAB; formerly Sphingomonas paucimobilis SYK-6 | - |
Substrates and Products (Substrate)
| EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 1.13.11.8 | 3-O-methylgallate + O2 | - |
Sphingobium sp. | ? | - |
? | |
| 1.13.11.8 | gallate + O2 | - |
Sphingobium sp. | ? | - |
? | |
| 1.13.11.8 | additional information | protocatechuate 4,5-dioxygenase (LigAB) catalyzes dioxygenation of multiple lignin derived aromatic compounds with decreasing efficiency as the molecule size increases. Residue F103 of the alpha-subunit controls substrate specificity through interaction with the C5-funtionality of bound substrates. In silico docking of substrates to the enzyme mutants, overview | Sphingobium sp. | ? | - |
? | |
| 1.13.11.8 | protocatechuate + O2 | - |
Sphingobium sp. | 4-carboxy-2-hydroxymuconate semialdehyde | - |
? | |
Synonyms
| EC Number | Synonyms | Comment | Organism |
|---|---|---|---|
| 1.13.11.8 | LigAB | - |
Sphingobium sp. |
Temperature Optimum [°C]
| EC Number | Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 1.13.11.8 | 25 | - |
assay at | Sphingobium sp. |
Turnover Number [1/s]
| EC Number | Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|---|
| 1.13.11.8 | 5 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
| 1.13.11.8 | 7 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
| 1.13.11.8 | 7.3 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
| 1.13.11.8 | 15.1 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 22.7 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 24 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 33 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103L | Sphingobium sp. | |
| 1.13.11.8 | 41 | - |
gallate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 49 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 53 | - |
gallate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
| 1.13.11.8 | 89 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103V | Sphingobium sp. | |
| 1.13.11.8 | 91 | - |
3-O-methylgallate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 110 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103H | Sphingobium sp. | |
| 1.13.11.8 | 112 | - |
protocatechuate | pH 7.5, 25°C, recombinant mutant F103T | Sphingobium sp. | |
| 1.13.11.8 | 216 | - |
protocatechuate | pH 7.5, 25°C, recombinant wild-type enzyme | Sphingobium sp. | |
pH Optimum
| EC Number | pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|---|
| 1.13.11.8 | 7.5 | - |
assay at | Sphingobium sp. |
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