Crystallization (Comment) | Organism |
---|---|
purified free enzyme and enzyme in complex with substrate analogue inhibitor carbaglucose 6-phosphate, and with NAD+, and Co2+, hanging drop vapour diffusion method, mixing of 0.002 ml pf 4.2 mg/ml protein in 5 mM Tris-HCl, pH 7.7, and 0.2 mM CoCl2, with 0.002 ml of reservoir solution containing 40% w/v PEG 4000, 200 mM Li2SO4, and 100 mM Tris-HCl, pH 8.6, equilibration against 1 ml of reservoir solution, addition of 1 mM Co2+ and 1 mM inhibitor, 4°C, X-ray diffraction structure determination and analysis at 2.15-2.3 A resoltuion, heavy atom derivatization | Niallia circulans |
Inhibitors | Comment | Organism | Structure |
---|---|---|---|
carbaglucose-6-phosphate | a substrate analogue inhibitor, binding structure, overview. The inhibitor coordinates a cobalt ion in the active site | Niallia circulans |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Co2+ | required | Niallia circulans |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
D-glucose 6-phosphate | Niallia circulans | multistep reaction | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
D-glucose 6-phosphate | Niallia circulans SANK72073 | multistep reaction | 2-deoxy-L-scyllo-inosose + phosphate | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Niallia circulans | Q9S5E2 | gene btrC | - |
Niallia circulans SANK72073 | Q9S5E2 | gene btrC | - |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
D-glucose 6-phosphate = 2-deoxy-L-scyllo-inosose + phosphate | reaction mechanism of the multistep reaction, stereochemistry of the phosphate elimination reaction, proceeding through syn-elimination assisted by Glu 243, and the cyclization, an aldol condensation that proceeds via a boat conformation, overview | Niallia circulans |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
D-glucose 6-phosphate | multistep reaction | Niallia circulans | 2-deoxy-L-scyllo-inosose + phosphate | - |
? | |
D-glucose 6-phosphate | multistep reaction | Niallia circulans SANK72073 | 2-deoxy-L-scyllo-inosose + phosphate | - |
? |
Subunits | Comment | Organism |
---|---|---|
dimer | two subunits exist as a dimer in the asymmetric unit. The two active sites of the dimer are different. One contains a dephosphorylated compound derived from the inhibitor and the other includes the inhibitor without change | Niallia circulans |
Synonyms | Comment | Organism |
---|---|---|
btrC | - |
Niallia circulans |
DOIS | - |
Niallia circulans |
Cofactor | Comment | Organism | Structure |
---|---|---|---|
NAD+ | required, binding strutcure in presence of inhibitor carbaglucose 6-phosphate | Niallia circulans |
General Information | Comment | Organism |
---|---|---|
metabolism | key enzyme in the biosynthesis of clinically important aminoglycoside antibiotics is 2-deoxy-scyllo-inosose synthase, which catalyzes carbocycle formation from D-glucose 6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction | Niallia circulans |
additional information | active site structure is located between the N-terminal and C-terminal domains. Two subunits exist as a dimer in the asymmetric unit. The two active sites of the dimer are different. One contains a dephosphorylated compound derived from the inhibitor and the other includes the inhibitor without change. Comparison of active site between the native and complex BtrC, overview | Niallia circulans |