BRENDA - Enzyme Database
show all sequences of 1.1.1.127

Structural determinants in bacterial 2-keto-3-deoxy-D-gluconate dehydrogenase KduD for dual-coenzyme specificity

Takase, R.; Maruyama, Y.; Oiki, S.; Mikami, B.; Murata, K.; Hashimoto, W.; Proteins 84, 934-947 (2016)

Data extracted from this reference:

Cloned(Commentary)
Cloned (Commentary)
Organism
expressed in Escherichia coli BL21(DE3) cells
Pectobacterium carotovorum subsp. carotovorum
Crystallization (Commentary)
Crystallization (Commentary)
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
Commentary
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]
Commentary
Organism
25000
-
4 * 25000, SDS-PAGE
Pectobacterium carotovorum subsp. carotovorum
90000
-
gel filtration
Pectobacterium carotovorum subsp. carotovorum
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
ID
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
Commentary
Textmining
Pectobacterium carotovorum subsp. carotovorum
-
-
-
Purification (Commentary)
Purification (Commentary)
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
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
Substrate Product ID
2,5-didehydro-3-deoxy-D-gluconate + NADH + H+
-
741387
Pectobacterium carotovorum subsp. carotovorum
2-dehydro-3-deoxy-D-gluconate + NAD+
-
-
-
?
2,5-didehydro-3-deoxy-D-gluconate + NADPH + H+
-
741387
Pectobacterium carotovorum subsp. carotovorum
2-dehydro-3-deoxy-D-gluconate + NADP+
-
-
-
?
Subunits
Subunits
Commentary
Organism
homotetramer
4 * 25000, SDS-PAGE
Pectobacterium carotovorum subsp. carotovorum
Synonyms
Synonyms
Commentary
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]
Commentary
Organism
45
-
-
Pectobacterium carotovorum subsp. carotovorum
Temperature Stability [°C]
Temperature Stability Minimum [°C]
Temperature Stability Maximum [°C]
Commentary
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
Commentary
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
Commentary
Organism
7.2
-
-
Pectobacterium carotovorum subsp. carotovorum
Cofactor
Cofactor
Commentary
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
Cloned(Commentary) (protein specific)
Commentary
Organism
expressed in Escherichia coli BL21(DE3) cells
Pectobacterium carotovorum subsp. carotovorum
Cofactor (protein specific)
Cofactor
Commentary
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
Crystallization (Commentary) (protein specific)
Crystallization
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] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
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] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
25000
-
4 * 25000, SDS-PAGE
Pectobacterium carotovorum subsp. carotovorum
90000
-
gel filtration
Pectobacterium carotovorum subsp. carotovorum
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
ID
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+
-
-
?
Purification (Commentary) (protein specific)
Commentary
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) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
ID
2,5-didehydro-3-deoxy-D-gluconate + NADH + H+
-
741387
Pectobacterium carotovorum subsp. carotovorum
2-dehydro-3-deoxy-D-gluconate + NAD+
-
-
-
?
2,5-didehydro-3-deoxy-D-gluconate + NADPH + H+
-
741387
Pectobacterium carotovorum subsp. carotovorum
2-dehydro-3-deoxy-D-gluconate + NADP+
-
-
-
?
Subunits (protein specific)
Subunits
Commentary
Organism
homotetramer
4 * 25000, SDS-PAGE
Pectobacterium carotovorum subsp. carotovorum
Temperature Optimum [°C] (protein specific)
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
45
-
-
Pectobacterium carotovorum subsp. carotovorum
Temperature Stability [°C] (protein specific)
Temperature Stability Minimum [°C]
Temperature Stability Maximum [°C]
Commentary
Organism
40
-
the enzyme shows more than 70% activity at 40°C for 5 min
Pectobacterium carotovorum subsp. carotovorum
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
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 (protein specific)
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
7.2
-
-
Pectobacterium carotovorum subsp. carotovorum
Other publictions for EC 1.1.1.127
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Synonyms
Temperature Optimum [°C]
Temperature Range [°C]
Temperature Stability [°C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [°C] (protein specific)
Temperature Range [°C] (protein specific)
Temperature Stability [°C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
741387
Takase
Structural determinants in bac ...
Pectobacterium carotovorum subsp. carotovorum
Proteins
84
934-947
2016
-
-
1
1
-
-
-
2
-
-
2
2
-
1
-
-
1
-
-
-
-
-
2
1
3
1
-
1
2
1
-
-
2
-
-
-
-
-
1
2
1
-
-
-
-
-
2
-
-
2
2
-
-
-
1
-
-
-
-
2
1
1
-
1
2
1
-
-
-
-
-
-
-
-
-
285820
Condemine
-
An enzyme in the pectinolytic ...
Dickeya chrysanthemi
J. Gen. Microbiol.
130
2839-2844
1984
-
-
-
-
-
-
3
4
-
1
-
1
-
1
-
-
1
-
-
1
1
1
2
-
-
1
-
2
-
2
-
-
4
-
-
-
-
-
-
4
-
-
-
-
3
-
4
-
1
-
1
-
-
-
1
-
1
1
1
2
-
1
-
2
-
2
-
-
-
-
-
-
-
-
-
285821
Preiss
Polygalacturonic acid metaboli ...
Pseudomonas sp.
J. Biol. Chem.
238
1577-1583
1963
-
-
-
-
-
1
-
-
-
-
-
1
-
1
-
-
1
-
-
1
1
1
1
-
-
-
-
-
-
1
-
-
2
-
-
-
-
-
-
2
-
-
1
-
-
-
-
-
-
-
1
-
-
-
1
-
1
1
1
1
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-