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Literature summary for 4.2.3.124 extracted from
- Purification and characterization of 2-deoxy-scyllo-inosose synthase derived from Bacillus circulans. A crucial carbocyclization enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics (1999), J. Antibiot., 52, 81-88.
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| Cu2+ | complete inhibition | Niallia circulans |  |
| EDTA | complete inhibition | Niallia circulans | |
| Fe2+ | - |
Niallia circulans | |
| Ni2+ | - |
Niallia circulans | |
| Zn2+ | complete inhibition | Niallia circulans | |
KM Value [mM]
| KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.9 | - |
D-glucose 6-phosphate | pH 7.7, 46°C | Niallia circulans | |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Ca2+ | only slightly activating, cannot substitute for Co2+ | Niallia circulans | |
| Co2+ | essential for activity, not only used for the enzyme reaction but also stabilizing DOI synthase | Niallia circulans | |
| Mg2+ | only slightly activating, cannot substitute for Co2+ | Niallia circulans | |
| Mn2+ | only slightly activating, cannot substitute for Co2+ | Niallia circulans | |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 23000 | - |
1 * 42000 + 1 * 23000, SDS-PAGE | Niallia circulans |
| 42000 | - |
1 * 42000 + 1 * 23000, SDS-PAGE | Niallia circulans |
| 54000 | - |
gel filtration | Niallia circulans |
| 65000 | - |
native PAGE | Niallia circulans |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| D-glucose 6-phosphate | Niallia circulans | intramolecular carbocyclization | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
| D-glucose 6-phosphate | Niallia circulans SANK72073 | intramolecular carbocyclization | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Niallia circulans | Q9S5E2 | a butirosin producing strain | - |
| Niallia circulans SANK72073 | Q9S5E2 | a butirosin producing strain | - |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
| native enzyme 148fold by ammonium sulfate fractionation, anion exchange and affinity chromatography, and gel filtration, followed by another different step of anion exchange chromatography | Niallia circulans |
Specific Activity [micromol/min/mg]
| Specific Activity Minimum [µmol/min/mg] | Specific Activity Maximum [µmol/min/mg] | Comment | Organism |
|---|---|---|---|
| 18.1 | - |
purified enzyme, pH 7.7, 46°C | Niallia circulans |
Storage Stability
| Storage Stability | Organism |
|---|---|
| -75°C, purified enzyme, in Tris-HCl, pH 7.7, and 0.14 M NaCl, completely stable for 6 months | Niallia circulans |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| D-glucose 6-phosphate | intramolecular carbocyclization | Niallia circulans | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
| D-glucose 6-phosphate | intramolecular carbocyclization | Niallia circulans SANK72073 | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| heterodimer | 1 * 42000 + 1 * 23000, SDS-PAGE | Niallia circulans |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| DOI synthase | - |
Niallia circulans |
Temperature Optimum [°C]
| Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|
| 46 | - |
- |
Niallia circulans |
Turnover Number [1/s]
| Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.073 | - |
D-glucose 6-phosphate | pH 7.7, 46°C | Niallia circulans | |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 7.5 | 8.5 | - |
Niallia circulans |
Cofactor
| Cofactor | Comment | Organism | Structure |
|---|---|---|---|
| NAD+ | essential for activity, not only used for the enzyme reaction but also stabilizing DOI synthase | Niallia circulans | |
General Information
| General Information | Comment | Organism |
|---|---|---|
| metabolism | the enzyme is involved in the biosynthesis of another major group of classical aminocyclitol antibiotics which contain the 2-deoxystreptamine, DOS, moiety such as neomycin, kanamycin, tobramycin, gentamicin, sisomicin, butirosin, or ribostamycin | Niallia circulans |
| additional information | while the reaction mechanisms are quite similar, 2-deoxy-scyllo-inosose synthase is distinct from 3-dehydroquinate synthase, EC 4.2.3.4, in the shikimate pathway, with respect to the quaternary structure, metal ion requirement, and the kinetic parameters | Niallia circulans |
| physiological function | the enzyme is crucial in the carbocyclization reaction as part of the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics. The DOI synthase catalyzes the intramolecular carbocyclization of D-glucose 6-phosphate into the first non-aminogenous cyclitol 2-deoxy-L-scyllo-inosose, DOI | Niallia circulans |
kcat/KM [mM/s]
| kcat/KM Value [1/mMs-1] | kcat/KM Value Maximum [1/mMs-1] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.081 | - |
D-glucose 6-phosphate | pH 7.7, 46°C | Niallia circulans | |
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