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Literature summary for 4.1.1.74 extracted from
- Cloning and characterization of indolepyruvate decarboxylase from Methylobacterium extorquens AM1 (2010), Biochemistry (Moscow), 75, 1435-1443.
Cloned(Commentary)
| Cloned (Comment) | Organism |
|---|---|
| expressed in Escherichia coli BL21(DE3) cells | Methylorubrum extorquens |
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| 3-(Indol-3-yl)pyruvate | substrate inhibition | Methylorubrum extorquens |  |
| 4-hydroxyphenylpyruvate | substrate inhibition | Methylorubrum extorquens | |
| benzoylformate | substrate inhibition | Methylorubrum extorquens | |
| additional information | no inhibition by pyruvate | Methylorubrum extorquens |
KM Value [mM]
| KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.025 | - |
3-(Indol-3-yl)pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 5.86 | - |
4-hydroxyphenylpyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 7.3 | - |
benzoylformate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 43.3 | - |
pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Mg2+ | required, IpdC is preincubated with 15mM thiamine diphosphate/Mg2+ in 10 mM Mes-NaOH at 25°C for 30 min to saturate the enzyme with cofactor | Methylorubrum extorquens | |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 60000 | - |
4 * 60000, SDS-PAGE | Methylorubrum extorquens |
| 245000 | - |
holoenzyme, gel filtration | Methylorubrum extorquens |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Methylorubrum extorquens | C5ARG4 | - |
- |
| Methylorubrum extorquens ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1 | C5ARG4 | - |
- |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
| Ni-NTA column chromatography, gel filtration | Methylorubrum extorquens |
Storage Stability
| Storage Stability | Organism |
|---|---|
| -20°C, 20% (v/v) glycerol with addition of thiamine diphosphate/Mg2+, six months, the enzyme remains quite stable | Methylorubrum extorquens |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| 3-(indol-3-yl)pyruvate | 3-(indol-3-yl)pyruvate is decarboxylated with the highest catalytic efficiency (kcat/Km) | Methylorubrum extorquens | 2-(indol-3-yl)acetaldehyde + CO2 | - |
? | |
| 3-(indol-3-yl)pyruvate | 3-(indol-3-yl)pyruvate is decarboxylated with the highest catalytic efficiency (kcat/Km) | Methylorubrum extorquens ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1 | 2-(indol-3-yl)acetaldehyde + CO2 | - |
? | |
| 4-hydroxyphenylpyruvate | - |
Methylorubrum extorquens | (4-hydroxyphenyl)acetaldehyde + CO2 | - |
? | |
| 4-hydroxyphenylpyruvate | - |
Methylorubrum extorquens ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1 | (4-hydroxyphenyl)acetaldehyde + CO2 | - |
? | |
| benzoylformate | the enzyme shows the highest kcat value for benzoylformate | Methylorubrum extorquens | benzaldehyde + CO2 | - |
? | |
| benzoylformate | the enzyme shows the highest kcat value for benzoylformate | Methylorubrum extorquens ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1 | benzaldehyde + CO2 | - |
? | |
| pyruvate | - |
Methylorubrum extorquens | acetaldehyde + CO2 | - |
? | |
| pyruvate | - |
Methylorubrum extorquens ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1 | acetaldehyde + CO2 | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| homotetramer | 4 * 60000, SDS-PAGE | Methylorubrum extorquens |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| Indole-3-pyruvate decarboxylase | - |
Methylorubrum extorquens |
| IpdC | - |
Methylorubrum extorquens |
| IPyr decarboxylase | - |
Methylorubrum extorquens |
Turnover Number [1/s]
| Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.64 | - |
3-(Indol-3-yl)pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 0.89 | - |
pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 1.65 | - |
4-hydroxyphenylpyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 31.4 | - |
benzoylformate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
Cofactor
| Cofactor | Comment | Organism | Structure |
|---|---|---|---|
| thiamine diphosphate | dependent on, IpdC is preincubated with 15mM thiamine diphosphate/Mg2+ in 10 mM Mes-NaOH at 25°C for 30 min to saturate the enzyme with cofactor | Methylorubrum extorquens | |
Ki Value [mM]
| Ki Value [mM] | Ki Value maximum [mM] | Inhibitor | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.73 | - |
3-(Indol-3-yl)pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 3.4 | - |
benzoylformate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 22.11 | - |
4-hydroxyphenylpyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
General Information
| General Information | Comment | Organism |
|---|---|---|
| malfunction | an ipdC-knockout mutant grown in the presence of tryptophan has decreased indole-3-acetic acid level (46% of wild type strain) | Methylorubrum extorquens |
| metabolism | IpdC id involved in indole-3-acetic acid biosynthesis | Methylorubrum extorquens |
kcat/KM [mM/s]
| kcat/KM Value [1/mMs-1] | kcat/KM Value Maximum [1/mMs-1] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.021 | - |
pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 0.28 | - |
4-hydroxyphenylpyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 4.3 | - |
benzoylformate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
| 25.6 | - |
3-(Indol-3-yl)pyruvate | at pH 6.5, temperature not specified in the publication | Methylorubrum extorquens | |
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