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Literature summary for 4.2.1.167 extracted from

  • Parthasarathy, A1.; Pierik, A.J.; Kahnt, J.; Zelder, O.; Buckel, W.
    Substrate specificity of 2-hydroxyglutaryl-CoA dehydratase from Clostridium symbiosum: toward a bio-based production of adipic acid (2011), Biochemistry, 50, 3540-3550.
    View publication on PubMed
Search for more literature for 4.2.1.167

Activating Compound

Activating Compound Comment Organism Structure
(R)-2-hydroxyglutaryl-CoA dehydratase component A activator protein, UniProt ID Q9X5B6 [Clostridium] symbiosum
activator protein HgdC
-
 [Clostridium] symbiosum
FMNH2 1.0 mol per mol of heterodimeric enzyme [Clostridium] symbiosum
riboflavin 0.3 mol per mol of heterodimeric enzyme [Clostridium] symbiosum

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.052
-
 (R)-2-hydroxyglutaryl-CoA pH 8.0, 21°C [Clostridium] symbiosum
0.052
-
 (R)-2-hydroxyglutaryl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.09
-
 S-(R)-2-hydroxyglutarylpantetheine strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.1
-
 (R)-2-hydroxyadipyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
0.1
-
 (R)-2-hydroxyadipyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.115
-
 (R)-2-hydroxyglutaryl-N-acetylcysteamine strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.25
-
 (E)-glutaconyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
0.25
-
 (E)-glutaconyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.57
-
 muconyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
0.57
-
 (E,E)-muconyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
1.1
-
 oxalocrotonyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
1.1
-
 (E)-oxalocrotonyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
2.1
-
 butynedioyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
2.1
-
 butynedioyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum

Metals/Ions

Metals/Ions Comment Organism Structure
Ca2+ 2.2 mol per mol of heterodimeric enzyme [Clostridium] symbiosum
Fe-S cluster 7.3 mol iron per mol of heterodimeric enzyme [Clostridium] symbiosum
Manganese 0.7 mol per mol of heterodimeric enzyme [Clostridium] symbiosum
additional information molybdenum or copper not detected [Clostridium] symbiosum
Zinc 1.2 mol per mol of heterodimeric enzyme [Clostridium] symbiosum

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
43033
-
 1 * 53981 (gene hgdA) + 1 * 43033 (gene hgdB), calculation from amino acid sequence [Clostridium] symbiosum
53981
-
 1 * 53981 (gene hgdA) + 1 * 43033 (gene hgdB), calculation from amino acid sequence [Clostridium] symbiosum

Organism

Organism UniProt Comment Textmining
[Clostridium] symbiosum
-
-
-
[Clostridium] symbiosum Q9X5B7 and Q9X5B8
-
-
[Clostridium] symbiosum DSM 934
-
-
-
[Clostridium] symbiosum DSM 934 Q9X5B7 and Q9X5B8
-
-

Purification (Commentary)

Purification (Comment) Organism
-
 [Clostridium] symbiosum

Specific Activity [micromol/min/mg]

Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
54
-
 substrate (R)-2-hydroxyglutaryl-CoA, strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
(E)-glutaconyl-CoA + H2O
-
 [Clostridium] symbiosum (R)-2-hydroxyglutaryl-CoA
-
 r
(E)-glutaconyl-CoA + H2O
-
 [Clostridium] symbiosum DSM 934 (R)-2-hydroxyglutaryl-CoA
-
 r
(E)-oxalocrotonyl-CoA + H2O
-
 [Clostridium] symbiosum (2R)-2-hydroxy-5-oxoadipyl-CoA
-
 r
(E)-oxalocrotonyl-CoA + H2O
-
 [Clostridium] symbiosum DSM 934 (2R)-2-hydroxy-5-oxoadipyl-CoA
-
 r
(E,E)-muconyl-CoA + H2O
-
 [Clostridium] symbiosum (2R,4E)-2-hydroxy-4-hexenedioyl-CoA
-
 r
(E,E)-muconyl-CoA + H2O
-
 [Clostridium] symbiosum DSM 934 (2R,4E)-2-hydroxy-4-hexenedioyl-CoA
-
 r
(R)-2-hydroxyadipyl-CoA
-
 [Clostridium] symbiosum (E)-2-hexenedioyl-CoA + H2O
-
 r
(R)-2-hydroxyadipyl-CoA
-
 [Clostridium] symbiosum DSM 934 (E)-2-hexenedioyl-CoA + H2O
-
 r
(R)-2-hydroxyadipyl-CoA
-
 [Clostridium] symbiosum ?
-
 ?
(R)-2-hydroxyadipyl-CoA
-
 [Clostridium] symbiosum DSM 934 ?
-
 ?
(R)-2-hydroxyglutaryl-CoA
-
 [Clostridium] symbiosum (E)-glutaconyl-CoA + H2O
-
 r
(R)-2-hydroxyglutaryl-CoA
-
 [Clostridium] symbiosum DSM 934 (E)-glutaconyl-CoA + H2O
-
 r
(R)-2-hydroxyglutaryl-N-acetylcysteamine
-
 [Clostridium] symbiosum (E)-glutaconyl-N-acetylcysteamine + H2O
-
 r
(R)-2-hydroxyglutaryl-N-acetylcysteamine
-
 [Clostridium] symbiosum DSM 934 (E)-glutaconyl-N-acetylcysteamine + H2O
-
 r
butynedioyl-CoA
-
 [Clostridium] symbiosum oxaloacetate + CoA initial products are 2-hydroxyfumaroyl-CoA or 2-hydroxymalyl-CoA which tautomerize to oxaloacetyl-CoA. The latter spontaneously hydrolyzes to oxaloacetate and coenzyme A ?
butynedioyl-CoA
-
 [Clostridium] symbiosum ?
-
 r
butynedioyl-CoA
-
 [Clostridium] symbiosum DSM 934 ?
-
 r
additional information no activity with 3-methylglutaconyl-CoA. The dehydratase is not specific for the CoA-moiety because (R)-2-hydroxyglutaryl-thioesters of N-acetylcysteamine and pantetheine serve as almost equal substrates [Clostridium] symbiosum ?
-
 ?
additional information no activity with 3-methylglutaconyl-CoA. The dehydratase is not specific for the CoA-moiety because (R)-2-hydroxyglutaryl-thioesters of N-acetylcysteamine and pantetheine serve as almost equal substrates [Clostridium] symbiosum DSM 934 ?
-
 ?
muconyl-CoA hydration of butynedioyl-CoA most likely leads to 2-oxosuccinyl-CoA, which spontaneously hydrolyzes to oxaloacetate and CoASH [Clostridium] symbiosum ?
-
 r
oxalocrotonyl-CoA
-
 [Clostridium] symbiosum ?
-
 r
S-(R)-2-hydroxyglutarylpantetheine
-
 [Clostridium] symbiosum S-(E)-glutaconylpantetheine + H2O
-
 r

Subunits

Subunits Comment Organism
heterodimer 1 * 53981 (gene hgdA) + 1 * 43033 (gene hgdB), calculation from amino acid sequence [Clostridium] symbiosum

Synonyms

Synonyms Comment Organism
hgdAB
-
 [Clostridium] symbiosum

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
82
-
 (R)-2-hydroxyglutaryl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.08
-
 (E)-oxalocrotonyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.14
-
 butynedioyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
0.8
-
 muconyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
1.4
-
 butynedioyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
8.2
-
 (E,E)-muconyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
27
-
 (E)-glutaconyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
27
-
 (E)-glutaconyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
440
-
 (R)-2-hydroxyadipyl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
440
-
 (R)-2-hydroxyadipyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
560
-
 (R)-2-hydroxyglutaryl-N-acetylcysteamine strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
800
-
 S-(R)-2-hydroxyglutarylpantetheine strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
820
-
 oxalocrotonyl-CoA pH 8.0, 21°C [Clostridium] symbiosum
1600
-
 (R)-2-hydroxyglutaryl-CoA strictly anaerobic conditions, 25°C, Tris-HCl buffer, pH 8.0, (R)-2-hydroxyglutaryl-CoA dehydratase activator protein from Acidaminococcus fermentans [Clostridium] symbiosum
1600
-
 (R)-2-hydroxyglutaryl-CoA pH 8.0, 21°C [Clostridium] symbiosum