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Literature summary for 3.4.16.4 extracted from

  • Binda, E.; Marcone, G.L.; Pollegioni, L.; Marinelli, F.
    Characterization of VanYn, a novel D,D-peptidase/D,D-carboxypeptidase involved in glycopeptide antibiotic resistance in Nonomuraea sp. ATCC 39727 (2012), FEBS J., 279, 3203-3213.
    View publication on PubMed
Search for more literature for 3.4.16.4

Cloned(Commentary)

Cloned (Comment) Organism
expression in Escherichia coli Nonomuraea sp.

Inhibitors

Inhibitors Comment Organism Structure
Ca2+ 1 mM, no residual activity Nonomuraea sp.
EDTA 4 mM, complete loss of activity. Ativity may be restored in presence of 8 mM Zn2+ Nonomuraea sp.
Mg2+ 1 mM, no residual activity Nonomuraea sp.
Zn2+ 1 mM, no residual activity Nonomuraea sp.

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
8
-
 acetyl-L-Lys-D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.
20
-
 D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.

Localization

Localization Comment Organism GeneOntology No. Textmining
soluble
-
 Nonomuraea sp.
-
-

Metals/Ions

Metals/Ions Comment Organism Structure
Zn2+ presence of 8 mM Zn2+ restores the activity of EDTA-treated enzyme Nonomuraea sp.

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
25000
-
 x * 25000, SDS-PAGE Nonomuraea sp.

Organism

Organism UniProt Comment Textmining
Nonomuraea sp. Q7WZ84
-
-
Nonomuraea sp. ATCC 39727 Q7WZ84
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
acetyl-L-Lys-D-Ala-D-Ala + H2O
-
 Nonomuraea sp. acetyl-L-Lys-D-Ala + D-Ala
-
 ?
acetyl-L-Lys-D-Ala-D-Ala + H2O
-
 Nonomuraea sp. ATCC 39727 acetyl-L-Lys-D-Ala + D-Ala
-
 ?
D-Ala-D-Ala + H2O
-
 Nonomuraea sp. D-Ala + D-Ala
-
 ?
D-Ala-D-Ala + H2O
-
 Nonomuraea sp. ATCC 39727 D-Ala + D-Ala
-
 ?
additional information on substrates mimicking peptidoglycan precursors, isoform VanYn shows D,D-carboxypeptidase and D,D-dipeptidase activity, but lacks D,D-carboxyesterase ability on D-Ala-D-Lac-terminating peptides Nonomuraea sp. ?
-
 ?
additional information on substrates mimicking peptidoglycan precursors, isoform VanYn shows D,D-carboxypeptidase and D,D-dipeptidase activity, but lacks D,D-carboxyesterase ability on D-Ala-D-Lac-terminating peptides Nonomuraea sp. ATCC 39727 ?
-
 ?
Nalpha,Nepsilon-diacetyl-L-Lys-D-Ala-D-Ala + H2O
-
 Nonomuraea sp. Nalpha,Nepsilon-diacetyl-L-Lys-D-Ala + D-Ala
-
 ?
Nalpha,Nepsilon-diacetyl-L-Lys-D-Ala-D-Ala + H2O
-
 Nonomuraea sp. ATCC 39727 Nalpha,Nepsilon-diacetyl-L-Lys-D-Ala + D-Ala
-
 ?

Subunits

Subunits Comment Organism
? x * 25000, SDS-PAGE Nonomuraea sp.

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
8.3
-
 D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.
12.5
-
 acetyl-L-Lys-D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.415
-
 D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.
1.56
-
 acetyl-L-Lys-D-Ala-D-Ala pH 7.4, 25°C Nonomuraea sp.