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Literature summary for 3.5.2.12 extracted from

  • Yasuhira, K.; Shibata, N.; Mongami, G.; Uedo, Y.; Atsumi, Y.; Kawashima, Y.; Hibino, A.; Tanaka, Y.; Lee, Y.H.; Kato, D.; Takeo, M.; Higuchi, Y.; Negoro, S.
    X-ray crystallographic analysis of the 6-aminohexanoate cyclic dimer hydrolase: catalytic mechanism and evolution of an enzyme responsible for nylon-6 byproduct degradation (2010), J. Biol. Chem., 285, 1239-1248.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 3.5.2.12

Cloned(Commentary)

Cloned (Comment) Organism
expression in Escherichia coli Paenarthrobacter ureafaciens

Crystallization (Commentary)

Crystallization (Comment) Organism
single anonymous dispersion phasing of mercury derivative to 2.2 A, and construction of models of the native enzyme and mutant S174A to 1.9 A resolution. The overall structure of the molecule is a compact mixed alpha/beta fold containing a central irregular-sheet composed of 11 beta-strands surrounded by 20 alpha-helices Paenarthrobacter ureafaciens

Protein Variants

Protein Variants Comment Organism
C316A 18% of wild-type hydrolytic activity, decrease in the Km to approximately one-quarter the level of wild-type NylA, CD spectra similar to wild-type Paenarthrobacter ureafaciens
C316D 1.5% of wild-type activity Paenarthrobacter ureafaciens
C316E 1%% of wild-type activity Paenarthrobacter ureafaciens
C316G 185% of wild-type activity Paenarthrobacter ureafaciens
C316K 3.6% of wild-type activity Paenarthrobacter ureafaciens
C316N 4.3% of wild-type activity Paenarthrobacter ureafaciens
C316S 107% of wild-type activity Paenarthrobacter ureafaciens
K72A decreases the hydrolytic and esterolytic activities to undetectable levels Paenarthrobacter ureafaciens
N125A 14% of wild-type hydrolytic activity, CD spectra similar to wild-type Paenarthrobacter ureafaciens
S150A decreases the hydrolytic and esterolytic activities to undetectable levels Paenarthrobacter ureafaciens
S174A decreases the hydrolytic and esterolytic activities to undetectable levels Paenarthrobacter ureafaciens

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.85
-
 6-amino-hexanoate cyclic dimer mutant C316A, pH 7.0, 30°C Paenarthrobacter ureafaciens
1.8
-
 6-amino-hexanoate cyclic dimer mutant C316S, pH 7.0, 30°C Paenarthrobacter ureafaciens
3.51
-
 6-amino-hexanoate cyclic dimer wild-type, pH 7.0, 30°C Paenarthrobacter ureafaciens
3.66
-
 6-amino-hexanoate cyclic dimer mutant C316G, pH 7.0, 30°C Paenarthrobacter ureafaciens
13.2
-
 6-amino-hexanoate cyclic dimer mutant N125A, pH 7.0, 30°C Paenarthrobacter ureafaciens
19
-
 6-amino-hexanoate cyclic dimer mutant C316D, pH 7.0, 30°C Paenarthrobacter ureafaciens

Organism

Organism UniProt Comment Textmining
Paenarthrobacter ureafaciens
-
-
-

Reaction

Reaction Comment Organism Reaction ID
1,8-diazacyclotetradecane-2,9-dione + H2O = N-(6-aminohexanoyl)-6-aminohexanoate a Ser174-cis-Ser150-Lys72 triad constitutes the catalytic center, the backbone N in Ala171 and Ala172 are involved in oxyanion stabilization, Cys316-S forms a hydrogen bond with nitrogen N7 of 6-amino-hexanoate cyclic dimer at the uncleaved amide bond in two equivalent amide bonds of 6-amino-hexanoate cyclic dimer Paenarthrobacter ureafaciens
a

Specific Activity [micromol/min/mg]

Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
0.04
-
 mutant C316E, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.063
-
 mutant C316D, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.15
-
 mutant C316K, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.18
-
 mutant C316N, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.57
-
 mutant N125A, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.73
-
 mutant C316A, pH 7.0, 30°C Paenarthrobacter ureafaciens
4.1
-
 wild-type, pH 7.0, 30°C Paenarthrobacter ureafaciens
4.46
-
 mutant C316S, pH 7.0, 30°C Paenarthrobacter ureafaciens
7.7
-
 mutant C316G, pH 7.0, 30°C Paenarthrobacter ureafaciens

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
6-amino-hexanoate cyclic dimer + H2O
-
 Paenarthrobacter ureafaciens 6-aminohexanoate linear dimer
-
 ?
additional information enzyme additionally catalyzes the hydrolysis of amide compounds and esters such as glutamine, malonamide, indoleacetamide, 4-nitrophenylacetate, with a specific activity beolw 0.5% of the activity with 6-amino-hexanoate cyclic dimer Paenarthrobacter ureafaciens ?
-
 ?

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.14
-
 6-amino-hexanoate cyclic dimer mutant C316D, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.71
-
 6-amino-hexanoate cyclic dimer mutant C316A, pH 7.0, 30°C Paenarthrobacter ureafaciens
1.12
-
 6-amino-hexanoate cyclic dimer mutant N125A, pH 7.0, 30°C Paenarthrobacter ureafaciens
4.83
-
 6-amino-hexanoate cyclic dimer mutant C316S, pH 7.0, 30°C Paenarthrobacter ureafaciens
4.97
-
 6-amino-hexanoate cyclic dimer wild-type, pH 7.0, 30°C Paenarthrobacter ureafaciens
9.15
-
 6-amino-hexanoate cyclic dimer mutant C316G, pH 7.0, 30°C Paenarthrobacter ureafaciens

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.007
-
 6-amino-hexanoate cyclic dimer mutant C316D, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.085
-
 6-amino-hexanoate cyclic dimer mutant N125A, pH 7.0, 30°C Paenarthrobacter ureafaciens
0.83
-
 6-amino-hexanoate cyclic dimer mutant C316A, pH 7.0, 30°C Paenarthrobacter ureafaciens
1.42
-
 6-amino-hexanoate cyclic dimer wild-type, pH 7.0, 30°C Paenarthrobacter ureafaciens
2.5
-
 6-amino-hexanoate cyclic dimer mutant C316G, pH 7.0, 30°C Paenarthrobacter ureafaciens
2.68
-
 6-amino-hexanoate cyclic dimer mutant C316S, pH 7.0, 30°C Paenarthrobacter ureafaciens