Crystallization (Comment) | Organism |
---|---|
2 enzyme crystal forms, X-ray diffraction structure determination and analysis at 2.3 and 3.2 A resolution, respectively, molecular replacement, enzyme in complex with ATP, with 2-dehydro-3-deoxy-D-gluconate and ATP analogue adenosine 5'-(beta,gamma-imino)triphosphate, i.e. AMP-PNP, or with 2-dehydro-3-deoxy-D-gluconate and ATP, X-ray diffraction structure determination and analysis at 2.1 A resolution | Thermus thermophilus |
KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
0.32 | - |
2-dehydro-3-deoxy-D-gluconate | pH 7.4, 35°C, in presence of 5 mM MgCl2 and 0.1 M KCl | Thermus thermophilus | |
3.6 | - |
2-keto-D-gluconate | pH 7.4, 35°C, in presence of 5 mM MgCl2 and 0.1 M KCl | Thermus thermophilus |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
K+ | 1.8fold activating at 0.1 M KCl | Thermus thermophilus | |
Mg2+ | essential for activity, best at 5 mM | Thermus thermophilus | |
additional information | no effect by Na+ | Thermus thermophilus |
Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
---|---|---|---|
160000 | - |
dynamic light scattering and gel filtration | Thermus thermophilus |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Thermus thermophilus | - |
- |
- |
Thermus thermophilus HB8 / ATCC 27634 / DSM 579 | - |
- |
- |
Purification (Comment) | Organism |
---|---|
- |
Thermus thermophilus |
Reaction | Comment | Organism | Reaction ID |
---|---|---|---|
ATP + 2-dehydro-3-deoxy-D-gluconate = ADP + 2-dehydro-3-deoxy-6-phospho-D-gluconate | active site structure, substrate binding structure involving amino acid residues L11, G34, A35, N38, Y89, Y103, R105, I134, R167, V247, E251, and E287, 2-dehydro-3-deoxy-D-gluconate is recognized as an open chain structure, catalytic mechanism, Arg167 and Asp251 play a role in transferring the gamma-phosphate of ATP to the 5'-hydroxyl group of 2-dehydro-3-deoxy-D-gluconate | Thermus thermophilus |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
ATP + 2-dehydro-3-deoxy-D-gluconate | preferred substrate, binding mechanism and structure, overview | Thermus thermophilus | ADP + 6-phospho-2-dehydro-3-deoxy-D-gluconate | - |
? | |
ATP + 2-dehydro-3-deoxy-D-gluconate | preferred substrate, binding mechanism and structure, overview | Thermus thermophilus HB8 / ATCC 27634 / DSM 579 | ADP + 6-phospho-2-dehydro-3-deoxy-D-gluconate | - |
? | |
ATP + 2-keto-D-gluconate | - |
Thermus thermophilus | ADP + 6-phospho-2-keto-D-gluconate | - |
? | |
ATP + 2-keto-D-gluconate | - |
Thermus thermophilus HB8 / ATCC 27634 / DSM 579 | ADP + 6-phospho-2-keto-D-gluconate | - |
? | |
additional information | enzyme shows high substrate specificity, no activity with glucose, fructose, ribose, xylitol, gluconate, and gluconic acid lactone | Thermus thermophilus | ? | - |
? | |
additional information | enzyme shows high substrate specificity, no activity with glucose, fructose, ribose, xylitol, gluconate, and gluconic acid lactone | Thermus thermophilus HB8 / ATCC 27634 / DSM 579 | ? | - |
? |
Subunits | Comment | Organism |
---|---|---|
hexamer | (alphabeta)3 | Thermus thermophilus |
hexamer | (alphabeta)3, each subunit is composed of a larger alpha/beta domain and a smaller beta-sheet | Thermus thermophilus |
More | each subunit is composed of a larger alpha/beta domain and a smaller beta-sheet | Thermus thermophilus |
Synonyms | Comment | Organism |
---|---|---|
2-keto-3-deoxygluconate kinase | - |
Thermus thermophilus |
KDGK | - |
Thermus thermophilus |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
35 | - |
assay at | Thermus thermophilus |
Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
2.2 | - |
2-keto-D-gluconate | pH 7.4, 35°C, in presence of 5 mM MgCl2 and 0.1 M KCl | Thermus thermophilus | |
11 | - |
2-dehydro-3-deoxy-D-gluconate | pH 7.4, 35°C, in presence of 5 mM MgCl2 and 0.1 M KCl | Thermus thermophilus |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
6 | 9 | broad optimum | Thermus thermophilus |
Cofactor | Comment | Organism | Structure |
---|---|---|---|
ATP | binding mechanism and structure, overview | Thermus thermophilus |