BRENDA - Enzyme Database

Structure of a highly NADP+-specific isocitrate dehydrogenase

Sidhu, N.S.; Delbaere, L.T.; Sheldrick, G.M.; Acta Crystallogr. Sect. D 67, 856-869 (2011)

Data extracted from this reference:

Crystallization (Commentary)
EC Number
Crystallization
Organism
1.1.1.42
hanging drop vapour diffusion method, 0.001 ml of 10 mg/ml protein in 12.5 mM 2-morpholinoethanesulfonic acid, pH 6.2, with 1.25 mM MnSO4, 1.25 mM dithiothreitol and 10% glycerol, is mixed with 0.001 ml of reservoir solution containing 25% w/v PEG 2000 MME, 0.2 M Tris-HCl, pH 7.3, and 0.2 M MgCl2, and with or without 0.001 ml of 10 mM NADP+, 3 days to 2 months, X-ray diffrcation structure determination and analysis at 1.8-1.9 A resolution, molecular replacement
Corynebacterium glutamicum
Inhibitors
EC Number
Inhibitors
Commentary
Organism
Structure
1.1.1.42
glyoxylate
-
Corynebacterium glutamicum
1.1.1.42
oxaloacetate
-
Corynebacterium glutamicum
Metals/Ions
EC Number
Metals/Ions
Commentary
Organism
Structure
1.1.1.42
Mg2+
required
Corynebacterium glutamicum
Molecular Weight [Da]
EC Number
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
1.1.1.42
80000
-
1 * 80000
Corynebacterium glutamicum
Natural Substrates/ Products (Substrates)
EC Number
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
1.1.1.42
isocitrate + NADP+
Corynebacterium glutamicum
-
2-oxoglutarate + CO2 + NADPH + H+
-
-
?
Organism
EC Number
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
1.1.1.42
Corynebacterium glutamicum
P50216
-
-
Substrates and Products (Substrate)
EC Number
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
1.1.1.42
isocitrate + NADP+
-
721162
Corynebacterium glutamicum
2-oxoglutarate + CO2 + NADPH + H+
-
-
-
?
1.1.1.42
isocitrate + NADP+
the enzyme shows high substrate specificity
721162
Corynebacterium glutamicum
2-oxoglutarate + CO2 + NADPH + H+
-
-
-
?
Subunits
EC Number
Subunits
Commentary
Organism
1.1.1.42
monomer
1 * 80000
Corynebacterium glutamicum
Cofactor
EC Number
Cofactor
Commentary
Organism
Structure
1.1.1.42
NADP+
NADP+-binding site in the interdomain interface, the enzyme shows high specificity for NADP+ mediated by interactions with the negatively charged 2'-phosphate group, which is surrounded by the side chains of two arginines, one histidine and, via a water, one lysine residue, forming ion pairs and hydrogen bonds
Corynebacterium glutamicum
Cofactor (protein specific)
EC Number
Cofactor
Commentary
Organism
Structure
1.1.1.42
NADP+
NADP+-binding site in the interdomain interface, the enzyme shows high specificity for NADP+ mediated by interactions with the negatively charged 2'-phosphate group, which is surrounded by the side chains of two arginines, one histidine and, via a water, one lysine residue, forming ion pairs and hydrogen bonds
Corynebacterium glutamicum
Crystallization (Commentary) (protein specific)
EC Number
Crystallization
Organism
1.1.1.42
hanging drop vapour diffusion method, 0.001 ml of 10 mg/ml protein in 12.5 mM 2-morpholinoethanesulfonic acid, pH 6.2, with 1.25 mM MnSO4, 1.25 mM dithiothreitol and 10% glycerol, is mixed with 0.001 ml of reservoir solution containing 25% w/v PEG 2000 MME, 0.2 M Tris-HCl, pH 7.3, and 0.2 M MgCl2, and with or without 0.001 ml of 10 mM NADP+, 3 days to 2 months, X-ray diffrcation structure determination and analysis at 1.8-1.9 A resolution, molecular replacement
Corynebacterium glutamicum
Inhibitors (protein specific)
EC Number
Inhibitors
Commentary
Organism
Structure
1.1.1.42
glyoxylate
-
Corynebacterium glutamicum
1.1.1.42
oxaloacetate
-
Corynebacterium glutamicum
Metals/Ions (protein specific)
EC Number
Metals/Ions
Commentary
Organism
Structure
1.1.1.42
Mg2+
required
Corynebacterium glutamicum
Molecular Weight [Da] (protein specific)
EC Number
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
1.1.1.42
80000
-
1 * 80000
Corynebacterium glutamicum
Natural Substrates/ Products (Substrates) (protein specific)
EC Number
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
1.1.1.42
isocitrate + NADP+
Corynebacterium glutamicum
-
2-oxoglutarate + CO2 + NADPH + H+
-
-
?
Substrates and Products (Substrate) (protein specific)
EC Number
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
1.1.1.42
isocitrate + NADP+
-
721162
Corynebacterium glutamicum
2-oxoglutarate + CO2 + NADPH + H+
-
-
-
?
1.1.1.42
isocitrate + NADP+
the enzyme shows high substrate specificity
721162
Corynebacterium glutamicum
2-oxoglutarate + CO2 + NADPH + H+
-
-
-
?
Subunits (protein specific)
EC Number
Subunits
Commentary
Organism
1.1.1.42
monomer
1 * 80000
Corynebacterium glutamicum