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Literature summary extracted from

  • Uda, N.; Matoba, Y.; Kumagai, T.; Oda, K.; Noda, M.; Sugiyama, M
    . Establishment of an in vitro D-cycloserine-synthesizing system by using O-ureido-L-serine synthase and D-cycloserine synthetase found in the biosynthetic pathway (2013), Antimicrob. Agents Chemother., 57, 2603-2612.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.5.1.47 expression in Escherichia coli Streptomyces lavendulae
2.6.99.3 expression in Escherichia coli Streptomyces lavendulae
6.3.3.5 C-terminally His6-tagged enzyme is overexpression in Escherichia coli Streptomyces lavendulae

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.5.1.47 0.12
-
hydrogen sulfide 30°C, pH 8.0 Streptomyces lavendulae
2.5.1.47 22
-
thiosulfate 30°C, pH 8.0 Streptomyces lavendulae
2.6.99.3 9
-
Hydroxyurea 30°C, pH 8.0 Streptomyces lavendulae
6.3.3.5 0.023
-
ATP pH 8.0, 30°C, cosubstrate: D-homocysteine Streptomyces lavendulae
6.3.3.5 0.037
-
ATP pH 8.0, 30°C, cosubstrate: beta-aminooxy-D-alanine Streptomyces lavendulae
6.3.3.5 0.045
-
ATP pH 8.0, 30°C, cosubstrate: D-2,4-diaminobutyrate Streptomyces lavendulae
6.3.3.5 0.045
-
ATP pH 8.0, 30°C, cosubstrate: D-ornithine Streptomyces lavendulae
6.3.3.5 0.054
-
ATP pH 8.0, 30°C, cosubstrate: D-homoserine Streptomyces lavendulae
6.3.3.5 0.073
-
ATP pH 8.0, 30°C, cosubstrate: O-ureido-D-serine Streptomyces lavendulae
6.3.3.5 10
-
O-ureido-D-serine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 19
-
D-homocysteine pH 8.0, 30°C Streptomyces lavendulae

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
6.3.3.5 Mg2+ required Streptomyces lavendulae

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
2.5.1.47 36000
-
4 * 36000, SDS-PAGE Streptomyces lavendulae
2.5.1.47 126000
-
gel filtration Streptomyces lavendulae
2.6.99.3 36000
-
4 * 36000, SDS-PAGE Streptomyces lavendulae
2.6.99.3 126000
-
gel filtration Streptomyces lavendulae
6.3.3.5 26000
-
gel filtration Streptomyces lavendulae
6.3.3.5 34000
-
1 * 34000, calculated from sequence Streptomyces lavendulae

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.6.99.3 O-acetyl-L-serine + hydroxyurea Streptomyces lavendulae the enzyme participates in the biosynthetic pathway of D-cycloserine, an antibiotic substance produced by several Streptomyces species O-ureido-L-serine + acetate
-
?
2.6.99.3 O-acetyl-L-serine + hydroxyurea Streptomyces lavendulae ATCC 11924 the enzyme participates in the biosynthetic pathway of D-cycloserine, an antibiotic substance produced by several Streptomyces species O-ureido-L-serine + acetate
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O Streptomyces lavendulae the enzyme is involved in the biosynthesis of the antituberculosis antibiotic D-cycloserine D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O Streptomyces lavendulae ATCC 11924 the enzyme is involved in the biosynthesis of the antituberculosis antibiotic D-cycloserine D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?

Organism

EC Number Organism UniProt Comment Textmining
2.5.1.47 Streptomyces lavendulae D2Z027
-
-
2.5.1.47 Streptomyces lavendulae ATCC 11924 D2Z027
-
-
2.6.99.3 Streptomyces lavendulae D2Z027
-
-
2.6.99.3 Streptomyces lavendulae ATCC 11924 D2Z027
-
-
6.3.3.5 Streptomyces lavendulae D2Z030
-
-
6.3.3.5 Streptomyces lavendulae ATCC 11924 D2Z030
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.5.1.47
-
Streptomyces lavendulae
2.6.99.3
-
Streptomyces lavendulae
6.3.3.5
-
Streptomyces lavendulae

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.5.1.47 O-acetyl-L-serine + hydrogen sulfide the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate. The enzyme catalyzes the reaction with O-acetyl-L-serine and hydroxyurea with 80fold lower catalytic efficiency Streptomyces lavendulae L-cysteine + acetate
-
?
2.5.1.47 O-acetyl-L-serine + hydrogen sulfide the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate. The enzyme catalyzes the reaction with O-acetyl-L-serine and hydroxyurea with 80fold lower catalytic efficiency Streptomyces lavendulae ATCC 11924 L-cysteine + acetate
-
?
2.5.1.47 O-acetyl-L-serine + L-homocysteine the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate Streptomyces lavendulae cystathionine + acetate
-
?
2.5.1.47 O-acetyl-L-serine + L-homocysteine the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate Streptomyces lavendulae ATCC 11924 cystathionine + acetate
-
?
2.5.1.47 O-acetyl-L-serine + thiosulfate the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate Streptomyces lavendulae S-sulfo-L-cysteine + acetate
-
?
2.5.1.47 O-acetyl-L-serine + thiosulfate the enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate Streptomyces lavendulae ATCC 11924 S-sulfo-L-cysteine + acetate
-
?
2.6.99.3 O-acetyl-L-serine + hydroxyurea the enzyme participates in the biosynthetic pathway of D-cycloserine, an antibiotic substance produced by several Streptomyces species Streptomyces lavendulae O-ureido-L-serine + acetate
-
?
2.6.99.3 O-acetyl-L-serine + hydroxyurea O-ureido-L-serine i.e. (2S)-2-amino-3-[(carbamoylamino)oxy]propanoate. No activity with O3-acetyl-D-serine and L-serine. The enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate. The enzyme also catalyzes the reaction with O-acetyl-L-serine and hydrogen sulfide (with 80fold higher catalytic efficiency) Streptomyces lavendulae O-ureido-L-serine + acetate
-
?
2.6.99.3 O-acetyl-L-serine + hydroxyurea the enzyme participates in the biosynthetic pathway of D-cycloserine, an antibiotic substance produced by several Streptomyces species Streptomyces lavendulae ATCC 11924 O-ureido-L-serine + acetate
-
?
2.6.99.3 O-acetyl-L-serine + hydroxyurea O-ureido-L-serine i.e. (2S)-2-amino-3-[(carbamoylamino)oxy]propanoate. No activity with O3-acetyl-D-serine and L-serine. The enzyme prefers sulfide as the second substrate, followed by hydroxyurea, L-homocysteine, and thiosulfate. The enzyme also catalyzes the reaction with O-acetyl-L-serine and hydrogen sulfide (with 80fold higher catalytic efficiency) Streptomyces lavendulae ATCC 11924 O-ureido-L-serine + acetate
-
?
6.3.3.5 beta-aminooxy-D-alanine + ATP + H2O
-
Streptomyces lavendulae D-cycloserine + ?
-
?
6.3.3.5 beta-aminooxy-D-alanine + ATP + H2O
-
Streptomyces lavendulae ATCC 11924 D-cycloserine + ?
-
?
6.3.3.5 D-2,4-diaminobutyrate + ATP + H2O
-
Streptomyces lavendulae ?
-
?
6.3.3.5 D-2,4-diaminobutyrate + ATP + H2O
-
Streptomyces lavendulae ATCC 11924 ?
-
?
6.3.3.5 D-homocysteine + ATP + H2O
-
Streptomyces lavendulae ?
-
?
6.3.3.5 D-homocysteine + ATP + H2O
-
Streptomyces lavendulae ATCC 11924 ?
-
?
6.3.3.5 D-homoserine + ATP + H2O
-
Streptomyces lavendulae ?
-
?
6.3.3.5 D-ornithine + ATP + H2O
-
Streptomyces lavendulae ?
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O the enzyme is involved in the biosynthesis of the antituberculosis antibiotic D-cycloserine Streptomyces lavendulae D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O O-ureido-D-serine i.e. (2R)-2-amino-3-[(carbamoylamino)oxy]propanoate. No activity with O-ureido-L-serine Streptomyces lavendulae D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O the enzyme is involved in the biosynthesis of the antituberculosis antibiotic D-cycloserine Streptomyces lavendulae ATCC 11924 D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?
6.3.3.5 O-ureido-D-serine + ATP + H2O O-ureido-D-serine i.e. (2R)-2-amino-3-[(carbamoylamino)oxy]propanoate. No activity with O-ureido-L-serine Streptomyces lavendulae ATCC 11924 D-cycloserine + CO2 + ammonia + ADP + phosphate
-
?

Subunits

EC Number Subunits Comment Organism
2.5.1.47 tetramer 4 * 36000, SDS-PAGE Streptomyces lavendulae
2.6.99.3 tetramer 4 * 36000, SDS-PAGE Streptomyces lavendulae
6.3.3.5 monomer 1 * 34000, calculated from sequence Streptomyces lavendulae

Synonyms

EC Number Synonyms Comment Organism
2.5.1.47 DcsD
-
Streptomyces lavendulae
2.6.99.3 DcsD
-
Streptomyces lavendulae
6.3.3.5 DcsG
-
Streptomyces lavendulae

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
2.5.1.47 30
-
assay at Streptomyces lavendulae
2.6.99.3 30
-
assay at Streptomyces lavendulae
6.3.3.5 30
-
assay at Streptomyces lavendulae

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.5.1.47 0.72
-
thiosulfate 30°C, pH 8.0 Streptomyces lavendulae
2.5.1.47 12
-
hydrogen sulfide 30°C, pH 8.0 Streptomyces lavendulae
2.6.99.3 11
-
Hydroxyurea 30°C, pH 8.0 Streptomyces lavendulae
6.3.3.5 860
-
D-homocysteine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 2200
-
O-ureido-D-serine pH 8.0, 30°C Streptomyces lavendulae

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
2.5.1.47 8
-
assay at Streptomyces lavendulae
2.6.99.3 8
-
assay at Streptomyces lavendulae
2.6.99.3 9
-
activity increases from pH 5.0 to pH 9.0 Streptomyces lavendulae
6.3.3.5 8
-
-
Streptomyces lavendulae

pH Range

EC Number pH Minimum pH Maximum Comment Organism
2.6.99.3 7.5 9 activity at pH 7.5 is about 45% compared to activity at pH 9.0 Streptomyces lavendulae

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
2.5.1.47 0.033
-
thiosulfate 30°C, pH 8.0 Streptomyces lavendulae
2.5.1.47 0.14
-
O-acetyl-L-serine 30°C, pH 8.0, cosubstrate: hydrogen sulfide Streptomyces lavendulae
2.5.1.47 0.19
-
L-homocysteine 30°C, pH 8.0 Streptomyces lavendulae
2.5.1.47 100
-
hydrogen sulfide 30°C, pH 8.0 Streptomyces lavendulae
2.6.99.3 0.15
-
O-acetyl-L-serine 30°C, pH 8.0, cosubstrate: hydroxyurea Streptomyces lavendulae
2.6.99.3 1.2
-
Hydroxyurea 30°C, pH 8.0 Streptomyces lavendulae
6.3.3.5 0.67
-
D-ornithine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 2.1
-
D-2,4-diaminobutyrate pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 6.1
-
D-homoserine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 14
-
beta-aminooxy-D-alanine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 45
-
D-homocysteine pH 8.0, 30°C Streptomyces lavendulae
6.3.3.5 210
-
O-ureido-D-serine pH 8.0, 30°C Streptomyces lavendulae