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Literature summary extracted from

  • Takase, R.; Maruyama, Y.; Oiki, S.; Mikami, B.; Murata, K.; Hashimoto, W.
    Structural determinants in bacterial 2-keto-3-deoxy-D-gluconate dehydrogenase KduD for dual-coenzyme specificity (2016), Proteins, 84, 934-947.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
1.1.1.127 expressed in Escherichia coli BL21(DE3) cells Pectobacterium carotovorum subsp. carotovorum

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.1.1.127 in complex with NAD+, hanging drop vapor diffusion method, using 5% (w/v) polyethylene glycol 4000, and 10% (v/v) isopropanol Pectobacterium carotovorum subsp. carotovorum

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.1.1.127 0.0021
-
 NADH at pH 7.2 and 45°C Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 0.005
-
 NADPH at pH 7.2 and 45°C Pectobacterium carotovorum subsp. carotovorum

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
1.1.1.127 25000
-
 4 * 25000, SDS-PAGE Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 90000
-
 gel filtration Pectobacterium carotovorum subsp. carotovorum

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
1.1.1.127 2,5-didehydro-3-deoxy-D-gluconate + NADH + H+ Pectobacterium carotovorum subsp. carotovorum
-
 2-dehydro-3-deoxy-D-gluconate + NAD+
-
 ?
1.1.1.127 2,5-didehydro-3-deoxy-D-gluconate + NADPH + H+ Pectobacterium carotovorum subsp. carotovorum
-
 2-dehydro-3-deoxy-D-gluconate + NADP+
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
1.1.1.127 Pectobacterium carotovorum subsp. carotovorum
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.1.1.127 Toyopearl DEAE-650 M column chromatography, Toyopearl butyl-650 M column chromatography, Q-Sepharose column chromatography, and Superdex 200 pg gel filtration Pectobacterium carotovorum subsp. carotovorum

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.1.1.127 2,5-didehydro-3-deoxy-D-gluconate + NADH + H+
-
 Pectobacterium carotovorum subsp. carotovorum 2-dehydro-3-deoxy-D-gluconate + NAD+
-
 ?
1.1.1.127 2,5-didehydro-3-deoxy-D-gluconate + NADPH + H+
-
 Pectobacterium carotovorum subsp. carotovorum 2-dehydro-3-deoxy-D-gluconate + NADP+
-
 ?

Subunits

EC Number Subunits Comment Organism
1.1.1.127 homotetramer 4 * 25000, SDS-PAGE Pectobacterium carotovorum subsp. carotovorum

Synonyms

EC Number Synonyms Comment Organism
1.1.1.127 2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase
-
 Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 2-keto-3-deoxy-D-gluconate dehydrogenase
-
 Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 KduD
-
 Pectobacterium carotovorum subsp. carotovorum

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
1.1.1.127 45
-
-
 Pectobacterium carotovorum subsp. carotovorum

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
1.1.1.127 40
-
 the enzyme shows more than 70% activity at 40°C for 5 min Pectobacterium carotovorum subsp. carotovorum

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1.1.1.127 0.021
-
 NADPH at pH 7.2 and 45°C Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 0.024
-
 NADH at pH 7.2 and 45°C Pectobacterium carotovorum subsp. carotovorum

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
1.1.1.127 7.2
-
-
 Pectobacterium carotovorum subsp. carotovorum

Cofactor

EC Number Cofactor Comment Organism Structure
1.1.1.127 NADH the enzyme utilizes both NADH and NADPH Pectobacterium carotovorum subsp. carotovorum
1.1.1.127 NADPH the enzyme utilizes both NADH and NADPH Pectobacterium carotovorum subsp. carotovorum