Any feedback?
Please rate this page
(literature.php)
(0/150)

BRENDA support

Literature summary for 1.1.1.290 extracted from

  • Rudolph, J.; Kim, J.; Copley, S.D.
    Multiple turnovers of the nicotino-enzyme PdxB require alpha-keto acids as cosubstrates (2010), Biochemistry, 49, 9249-9255.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 1.1.1.290

Cloned(Commentary)

Cloned (Comment) Organism
coexpression of His-tagged PdxB, SerC, and PdxA in Escherichia coli stran BL21(DE3) Escherichia coli
expressed in Escherichia coli BL21(DE3) cells Escherichia coli

Inhibitors

Inhibitors Comment Organism Structure
D-2-hydroxyglutarate competitive versus 4-phospho-D-erythronate, noncompetitive versus 2-oxoglutarate Escherichia coli
D-2-hydroxyglutaric acid competitive inhibitor vs. 4-phospho-D-erythronate and a noncompetitive inhibitor vs. alpha-oxoglutarate Escherichia coli
L-2-hydroxyglutaric acid
-
 Escherichia coli

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.0029
-
 4-phospho-D-erythronate pH 8.0, 22°C, recombinant enzyme Escherichia coli
0.0029
-
 4-phospho-D-erythronate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
0.086
-
 oxaloacetic acid in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
0.093
-
 2-oxoglutarate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
0.128
-
 pyruvate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2-oxoglutarate + NAD+ Escherichia coli
-
 D-2-hydroxyglutaric acid + NADH + H+
-
 ?
2-oxoglutarate + NAD+ Escherichia coli JW2317
-
 D-2-hydroxyglutaric acid + NADH + H+
-
 ?
4-phospho-D-erythronate + NAD+ Escherichia coli
-
 2-oxo-3-hydroxy-4-phospho-butanoate + NADH
-
 ?
4-phospho-D-erythronate + NAD+ Escherichia coli
-
 3-hydroxy-2-oxo-4-(phosphonooxy)butanoate + NADH + H+
-
 r
4-phospho-D-erythronate + NAD+ Escherichia coli JW2317
-
 2-oxo-3-hydroxy-4-phospho-butanoate + NADH
-
 ?
4-phospho-D-erythronate + NAD+ Escherichia coli JW2317
-
 3-hydroxy-2-oxo-4-(phosphonooxy)butanoate + NADH + H+
-
 r
additional information Escherichia coli 2,6-dichloroindolphenol, N-nitrosodimethylamine, and methylene blue cannot be reduced in the presence of the enzyme and 4-phospho-D-erythronate ?
-
 ?
additional information Escherichia coli JW2317 2,6-dichloroindolphenol, N-nitrosodimethylamine, and methylene blue cannot be reduced in the presence of the enzyme and 4-phospho-D-erythronate ?
-
 ?
oxaloacetic acid + NAD+ Escherichia coli
-
 ?
-
 ?
pyruvate + NAD+ Escherichia coli
-
 ?
-
 ?

Organism

Organism UniProt Comment Textmining
Escherichia coli
-
-
-
Escherichia coli JW2317
-
-
-

Purification (Commentary)

Purification (Comment) Organism
Ni-agarose column chromatography Escherichia coli
recombinant His-tagged PdxB from Escherichia coli stran BL21(DE3) by nickel affinity chromatography and ultrafiltration Escherichia coli

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2-oxoglutarate + NAD+
-
 Escherichia coli D-2-hydroxyglutaric acid + NADH + H+
-
 ?
2-oxoglutarate + NAD+
-
 Escherichia coli JW2317 D-2-hydroxyglutaric acid + NADH + H+
-
 ?
2-oxoglutarate + NADH + H+ stereospecific reaction Escherichia coli L-2-hydroxyglutarate + NAD+
-
 ?
4-phospho-D-erythronate + NAD+
-
 Escherichia coli 2-oxo-3-hydroxy-4-phospho-butanoate + NADH
-
 ?
4-phospho-D-erythronate + NAD+
-
 Escherichia coli JW2317 2-oxo-3-hydroxy-4-phospho-butanoate + NADH
-
 ?
4-phospho-D-erythronate + NAD+
-
 Escherichia coli 3-hydroxy-2-oxo-4-(phosphonooxy)butanoate + NADH + H+
-
 r
4-phospho-D-erythronate + NAD+
-
 Escherichia coli JW2317 3-hydroxy-2-oxo-4-(phosphonooxy)butanoate + NADH + H+
-
 r
4-phospho-D-erythronate + NAD+ multiple turnovers requiring 2-oxo acids for re-oxidation of NADH bound to the enzyme PdxB a coupled assay with the enzymes SerC and PdxA following in the bioyntetic pathway, overview Escherichia coli 2-oxo-3-hydroxy-4-phospho-butanoate + NADH + H+
-
 ?
additional information 2,6-dichloroindolphenol, N-nitrosodimethylamine, and methylene blue cannot be reduced in the presence of the enzyme and 4-phospho-D-erythronate Escherichia coli ?
-
 ?
additional information 2-oxoglutarate, oxaloacetic acid, and pyruvate are equally good subtrates for the enzyme Escherichia coli ?
-
 ?
additional information 2,6-dichloroindolphenol, N-nitrosodimethylamine, and methylene blue cannot be reduced in the presence of the enzyme and 4-phospho-D-erythronate Escherichia coli JW2317 ?
-
 ?
additional information 2-oxoglutarate, oxaloacetic acid, and pyruvate are equally good subtrates for the enzyme Escherichia coli JW2317 ?
-
 ?
oxaloacetic acid + NAD+
-
 Escherichia coli ?
-
 ?
pyruvate + NAD+
-
 Escherichia coli ?
-
 ?

Synonyms

Synonyms Comment Organism
PDXB
-
 Escherichia coli

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
22
-
 assay at room temperature Escherichia coli

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1
-
 2-oxoglutarate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
1.1
-
 oxaloacetic acid in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
1.3
-
 pyruvate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
1.4
-
 4-phospho-D-erythronate pH 8.0, 22°C, recombinant enzyme Escherichia coli
1.4
-
 4-phospho-D-erythronate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
8
-
 assay at Escherichia coli

Cofactor

Cofactor Comment Organism Structure
additional information PdxB contains tightly bound NAD+ and/or NADH that cannot be removed by extensive dialysis Escherichia coli
NAD+ specific for Escherichia coli
NAD+ the released cofactor is 10% NAD+ and 90% NADH Escherichia coli
NADH specific for Escherichia coli
NADH the enzyme contains a tightly bound NADH, the released cofactor is 10% NAD+ and 90% NADH Escherichia coli

Ki Value [mM]

Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
0.017
-
 D-2-hydroxyglutarate pH 8.0, 22°C, recombinant enzyme, versus 2-oxoglutarate Escherichia coli
0.03
-
 D-2-hydroxyglutarate pH 8.0, 22°C, recombinant enzyme, versus 4-phospho-D-erythronate Escherichia coli

IC50 Value

IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
0.102
-
 in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli D-2-hydroxyglutaric acid
2
-
 in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli L-2-hydroxyglutaric acid

General Information

General Information Comment Organism
metabolism pyridoxal phosphate biosynthesis in Escherichia coli is quite different from the more widely used Pdx1/Pdx2-dependent pathway. Escherichia coli uses seven enzymes in a bifurcated pathway that converts pyruvate, glyceraldehyde-3-phosphate, and erythrose-4-phosphate to pyridoxal phosphate via the intermediates 1-deoxy-D-xylulose 5-phosphate and 1-amino-propan-2-one-3-phosphate. PdxB catalyzes the second step in the biosynthesis of pyridoxal phosphate by oxidizing 4-phospho-D-erythronate to 2-oxo-3-hydroxy-4-phospho-butanoate with concomitant reduction Escherichia coli

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
9.9
-
 pyruvate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
11
-
 2-oxoglutarate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
13
-
 oxaloacetic acid in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli
6700
-
 4-phospho-D-erythronate pH 8.0, 22°C, recombinant enzyme Escherichia coli
6700
-
 4-phospho-D-erythronate in 50 mM Tris-HCl (pH 8.0) with 50 mM NaCl, 1 mM dithiothreitol, at 22°C Escherichia coli