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Literature summary extracted from
- L-ribose production from L-arabinose by using purified L-arabinose isomerase and mannose-6-phosphate isomerase from Geobacillus thermodenitrificans (2009), Appl. Environ. Microbiol., 75, 6941-6943.
Application
| EC Number | Application | Comment | Organism |
|---|---|---|---|
| 5.3.1.4 | synthesis | L-ribose production of the enzyme in a coupled assay system with mannose-6-phosphate isomerase, EC 5.3.1.8, in recombinant Escherichia coli ER2566, AI/MPI ratio, 1:2.5, method optimization. L-Ribose is a potential starting material for the synthesis of many L-nucleoside-based pharmaceutical compounds | Geobacillus thermodenitrificans |
| 5.3.1.8 | synthesis | L-ribose production of the enzyme in a coupled assay system with L-arabinose isomerase, EC 5.3.1.4, in recombinant Escherichia coli ER2566, AI/MPI ratio, 1:2.5, method optimization. L-Ribose is a potential starting material for the synthesis of many L-nucleoside-based pharmaceutical compounds | Geobacillus thermodenitrificans |
Cloned(Commentary)
| EC Number | Cloned (Comment) | Organism |
|---|---|---|
| 5.3.1.4 | expression in Escherichia coli strain ER2566, coexpression with mannose-6-phosphate isomerase | Geobacillus thermodenitrificans |
| 5.3.1.8 | expression in Escherichia coli strain ER2566, coexpression with L-arabinose isomerase | Geobacillus thermodenitrificans |
| 5.3.1.13 | kdsD and gutQ, API is encoded by the two paralogous genes, which may substitute for each other, expression of His-tagged KdsD in Escherichia coli strain BL21(DE3), subcloning in strain DH5alpha | Escherichia coli |
Inhibitors
| EC Number | Inhibitors | Comment | Organism | Structure |
|---|---|---|---|---|
| 5.3.1.13 | Zn2+ | inhibits substrate binding by the enzyme in a reversible manner | Escherichia coli |  |
Metals/Ions
| EC Number | Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|---|
| 5.3.1.4 | Co2+ | - |
Geobacillus thermodenitrificans | |
| 5.3.1.8 | Co2+ | - |
Geobacillus thermodenitrificans | |
Natural Substrates/ Products (Substrates)
| EC Number | Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 5.3.1.4 | L-arabinose | Geobacillus thermodenitrificans | - |
L-ribulose | - |
? | |
| 5.3.1.8 | D-Mannose 6-phosphate | Geobacillus thermodenitrificans | - |
D-Fructose 6-phosphate | - |
r | |
| 5.3.1.13 | D-Arabinose 5-phosphate | Escherichia coli | - |
D-Ribulose 5-phosphate | - |
? | |
Organism
| EC Number | Organism | UniProt | Comment | Textmining |
|---|---|---|---|---|
| 5.3.1.4 | Geobacillus thermodenitrificans | - |
- |
- |
| 5.3.1.8 | Geobacillus thermodenitrificans | - |
- |
- |
| 5.3.1.13 | Escherichia coli | - |
API is encoded by two paralogous genes kdsD and gutQ, which may substitute for each other | - |
Purification (Commentary)
| EC Number | Purification (Comment) | Organism |
|---|---|---|
| 5.3.1.13 | recombinant His-tagged KdsD from Escherichia coli strain Bl21(DE3) by nickel affinity chromatography | Escherichia coli |
Substrates and Products (Substrate)
| EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|---|
| 5.3.1.4 | L-arabinose | - |
Geobacillus thermodenitrificans | L-ribulose | - |
? | |
| 5.3.1.8 | D-Mannose 6-phosphate | - |
Geobacillus thermodenitrificans | D-Fructose 6-phosphate | - |
r | |
| 5.3.1.13 | 3-deoxy-D-arabinose 5-phosphate | KdsD converts 3-deoxy-A5P to 3-deoxy-Ru5P, but the catalysis proceeds tenfold slower than for the natural substrate isomerization | Escherichia coli | 3-deoxy-D-glycero-pentulose 5-phosphate | - |
? | |
| 5.3.1.13 | 4-deoxy-D-arabinose 5-phosphate | KdsD converts 4-deoxy-A5P to 4-deoxy-Ru5P, but the catalysis proceeds slower than for the natural substrate isomerization | Escherichia coli | 4-deoxy-D-glycero-pentulose 5-phosphate | - |
? | |
| 5.3.1.13 | D-Arabinose 5-phosphate | - |
Escherichia coli | D-Ribulose 5-phosphate | - |
? | |
| 5.3.1.13 | additional information | KdsD substrate specificity, overview | Escherichia coli | ? | - |
? | |
Subunits
| EC Number | Subunits | Comment | Organism |
|---|---|---|---|
| 5.3.1.13 | tetramer | - |
Escherichia coli |
Synonyms
| EC Number | Synonyms | Comment | Organism |
|---|---|---|---|
| 5.3.1.8 | MPI | - |
Geobacillus thermodenitrificans |
| 5.3.1.13 | API | - |
Escherichia coli |
| 5.3.1.13 | GutQ | - |
Escherichia coli |
| 5.3.1.13 | KdsD | - |
Escherichia coli |
Temperature Optimum [°C]
| EC Number | Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|---|
| 5.3.1.4 | 70 | - |
assay at | Geobacillus thermodenitrificans |
| 5.3.1.8 | 70 | - |
assay at | Geobacillus thermodenitrificans |
| 5.3.1.13 | 37 | - |
assay at | Escherichia coli |
pH Optimum
| EC Number | pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|---|
| 5.3.1.4 | 7 | - |
assay at | Geobacillus thermodenitrificans |
| 5.3.1.8 | 7 | - |
assay at | Geobacillus thermodenitrificans |
| 5.3.1.13 | 7.3 | - |
assay at | Escherichia coli |
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Release 2023.1 (January 2023)
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