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Literature summary for 1.1.1.127 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)

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

Crystallization (Commentary)

Crystallization (Comment) Organism
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]

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

Molecular Weight [Da]

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

Natural Substrates/ Products (Substrates)

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

Organism

Organism UniProt Comment Textmining
Pectobacterium carotovorum subsp. carotovorum
-
-
-

Purification (Commentary)

Purification (Comment) Organism
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)

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

Subunits

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

Synonyms

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

Temperature Optimum [°C]

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

Temperature Stability [°C]

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

Turnover Number [1/s]

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

pH Optimum

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

Cofactor

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