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Literature summary extracted from

  • Fogle, E.J.; Toney, M.D.
    Analysis of catalytic determinants of diaminopimelate and ornithine decarboxylases using alternate substrates (2011), Biochim. Biophys. Acta, 1814, 1113-1119.
    View publication on PubMedView publication on EuropePMC

Inhibitors

EC Number Inhibitors Comment Organism Structure
4.1.1.17 D-ornithine
-
 Saccharomyces cerevisiae
4.1.1.17 putrescine product inhibition Saccharomyces cerevisiae
4.1.1.20 D-Lysine a small amount of decarboxlation occurs Mycobacterium tuberculosis
4.1.1.20 L,L-2,6-diaminoheptanedioate no detectable amounts of decarboxylation products Mycobacterium tuberculosis
4.1.1.20 L-lysine no detectable amounts of decarboxylation products Mycobacterium tuberculosis
4.1.1.20 LL-2,6-Diaminoheptanedioate
-
 Mycobacterium tuberculosis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
4.1.1.17 0.122
-
 L-ornithine CO2 assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.17 0.214
-
 L-ornithine circular dichroism assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.20 0.4
-
 meso-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 0.43
-
 DL-2,6-Diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 1 7 D,D-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis

Organism

EC Number Organism UniProt Comment Textmining
4.1.1.17 Saccharomyces cerevisiae
-
-
-
4.1.1.17 Saccharomyces cerevisiae WDHT668
-
-
-
4.1.1.20 Mycobacterium tuberculosis
-
-
-
4.1.1.20 Mycobacterium tuberculosis P9WIU7
-
-
4.1.1.20 Mycobacterium tuberculosis H37Rv P9WIU7
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
4.1.1.20 Ni-NTA column chromatography Mycobacterium tuberculosis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4.1.1.17 L-ornithine
-
 Saccharomyces cerevisiae putrescine + CO2
-
 ?
4.1.1.17 L-ornithine
-
 Saccharomyces cerevisiae WDHT668 putrescine + CO2
-
 ?
4.1.1.20 D,D-2,6-diaminoheptanedioate
-
 Mycobacterium tuberculosis L-lysine + CO2
-
 ?
4.1.1.20 D,D-2,6-diaminoheptanedioate
-
 Mycobacterium tuberculosis H37Rv L-lysine + CO2
-
 ?
4.1.1.20 DD-2,6-diaminoheptanedioate DD-2,6-diaminoheptanedioate is a reasonable substrate for DAPDC but with an about 100fold lower kcat/Km value than DL-DAP Mycobacterium tuberculosis L-lysine + CO2
-
 ?
4.1.1.20 DL-2,6-diaminoheptanedioate
-
 Mycobacterium tuberculosis L-lysine + CO2
-
 ?
4.1.1.20 meso-2,6-Diaminoheptanedioate
-
 Mycobacterium tuberculosis L-Lysine + CO2
-
 ?
4.1.1.20 meso-2,6-Diaminoheptanedioate commercial meso-2,6-diaminoheptanedioate is a mixture of 50% DL-2,6-diaminoheptanedioate, 25% DD-2,6-diaminoheptanedioate and 25% LL-2,6-diaminoheptanedioate Mycobacterium tuberculosis L-Lysine + CO2
-
 ?
4.1.1.20 meso-2,6-Diaminoheptanedioate
-
 Mycobacterium tuberculosis H37Rv L-Lysine + CO2
-
 ?
4.1.1.20 additional information the reaction catalyzed by diaminopimelate decarboxylase on D stereocenters could be a concerted, backside electrophilic substitution reaction with simultaneous CO2 loss from Calpha and proton donation to the backside of Calpha from Lys72 Mycobacterium tuberculosis ?
-
 ?
4.1.1.20 additional information the reaction catalyzed by diaminopimelate decarboxylase on D stereocenters could be a concerted, backside electrophilic substitution reaction with simultaneous CO2 loss from Calpha and proton donation to the backside of Calpha from Lys72 Mycobacterium tuberculosis H37Rv ?
-
 ?

Synonyms

EC Number Synonyms Comment Organism
4.1.1.20 DAPDC
-
 Mycobacterium tuberculosis

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
4.1.1.17 3.3
-
 L-ornithine CO2 assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.17 4.2
-
 L-ornithine circular dichroism assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.20 1.8
-
 D,D-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 1.8
-
 DD-2,6-diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 7.1
-
 meso-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 7.1
-
 meso-2,6-diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 7.1
-
 DL-2,6-Diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis

Cofactor

EC Number Cofactor Comment Organism Structure
4.1.1.20 pyridoxal 5'-phosphate
-
 Mycobacterium tuberculosis

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
4.1.1.17 0.25
-
 putrescine pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.17 0.38
-
 D-ornithine pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.20 1.6
-
 L,L-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 1.6
-
 LL-2,6-Diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 1.8
-
 L-lysine pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 1.8
-
 L-lysine in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 26
-
 D-Lysine pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 26
-
 D-Lysine in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
4.1.1.17 20
-
 L-ornithine circular dichroism assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.17 27
-
 L-ornithine CO2 assay, pH 7.8, 25°C Saccharomyces cerevisiae
4.1.1.20 0.1
-
 D,D-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis
4.1.1.20 16
-
 DL-2,6-Diaminoheptanedioate in 100 mM TEA-HCl pH 7.8, temperature not specified in the publication Mycobacterium tuberculosis
4.1.1.20 18
-
 meso-2,6-diaminoheptanedioate pH 7.8, 25°C Mycobacterium tuberculosis