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Literature summary extracted from

  • Ohshima, N.; Inagaki, E.; Yasuike, K.; Takio, K.; Tahirov, T.H.
    Structure of Thermus thermophilus 2-keto-3-deoxygluconate kinase: evidence for recognition of an open chain substrate (2004), J. Mol. Biol., 340, 477-489.
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
2.7.1.45 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]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.7.1.45 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
2.7.1.45 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

EC Number Metals/Ions Comment Organism Structure
2.7.1.45 K+ 1.8fold activating at 0.1 M KCl Thermus thermophilus
2.7.1.45 Mg2+ essential for activity, best at 5 mM Thermus thermophilus
2.7.1.45 additional information no effect by Na+ Thermus thermophilus

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
2.7.1.45 160000
-
 dynamic light scattering and gel filtration Thermus thermophilus

Organism

EC Number Organism UniProt Comment Textmining
2.7.1.45 Thermus thermophilus
-
-
-
2.7.1.45 Thermus thermophilus HB8 / ATCC 27634 / DSM 579
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.7.1.45
-
 Thermus thermophilus

Reaction

EC Number Reaction Comment Organism Reaction ID
2.7.1.45 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
a

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.7.1.45 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
-
 ?
2.7.1.45 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
-
 ?
2.7.1.45 ATP + 2-keto-D-gluconate
-
 Thermus thermophilus ADP + 6-phospho-2-keto-D-gluconate
-
 ?
2.7.1.45 ATP + 2-keto-D-gluconate
-
 Thermus thermophilus HB8 / ATCC 27634 / DSM 579 ADP + 6-phospho-2-keto-D-gluconate
-
 ?
2.7.1.45 additional information enzyme shows high substrate specificity, no activity with glucose, fructose, ribose, xylitol, gluconate, and gluconic acid lactone Thermus thermophilus ?
-
 ?
2.7.1.45 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

EC Number Subunits Comment Organism
2.7.1.45 hexamer (alphabeta)3 Thermus thermophilus
2.7.1.45 hexamer (alphabeta)3, each subunit is composed of a larger alpha/beta domain and a smaller beta-sheet Thermus thermophilus
2.7.1.45 More each subunit is composed of a larger alpha/beta domain and a smaller beta-sheet Thermus thermophilus

Synonyms

EC Number Synonyms Comment Organism
2.7.1.45 2-keto-3-deoxygluconate kinase
-
 Thermus thermophilus
2.7.1.45 KDGK
-
 Thermus thermophilus

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
2.7.1.45 35
-
 assay at Thermus thermophilus

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.7.1.45 2.2
-
 2-keto-D-gluconate pH 7.4, 35°C, in presence of 5 mM MgCl2 and 0.1 M KCl Thermus thermophilus
2.7.1.45 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

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
2.7.1.45 6 9 broad optimum Thermus thermophilus

Cofactor

EC Number Cofactor Comment Organism Structure
2.7.1.45 ATP binding mechanism and structure, overview Thermus thermophilus