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Literature summary for 5.1.1.5 extracted from

  • Chen, I.; Lin, W.; Hsu, S.; Thiruvengadam, V.; Hsu, W.
    Isolation and characterization of a novel lysine racemase from a soil metagenomic library (2009), Appl. Environ. Microbiol., 75, 5161-5166.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
expression in Escherichia coli uncultured bacterium

Inhibitors

Inhibitors Comment Organism Structure
dipicolinic acid complete inhibition by metal-chelating agents in 50 mM Tris-HCl buffer (pH 8.0) at 30┬░C uncultured bacterium
EDTA complete inhibition by metal-chelating agents in 50 mM Tris-HCl buffer (pH 8.0) at 30┬░C uncultured bacterium

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
16.21
-
L-lysine in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium
23.48
-
D-Lysine in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium

Metals/Ions

Metals/Ions Comment Organism Structure
Co2+ addition of 2 mM extrinsic divalent ions enhances the enzyme activity up to 114.5% uncultured bacterium
Mg2+ addition of 2 mM extrinsic divalent ions enhances the enzyme activity up to 83.6 uncultured bacterium
Mn2+ addition of 2 mM extrinsic divalent ions enhances the enzyme activity up to 97.3% uncultured bacterium
Zn2+ analyzing of bound metal ions in purified Lyr with an inductively coupled plasma spectrometer shows that dialyzed Lyr contains 0.77 mol of Zn2+ per mol of the dimeric enzyme, while cobalt, magnesium, manganese, nickel, or copper ions are absent uncultured bacterium

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
42700
-
protein composed of 393 amino acids with the calculated molecular mass, confirmed by SDS-PAGE uncultured bacterium

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
L-lysine uncultured bacterium
-
D-lysine enzyme exhibits higher specific activity toward lysine in the L-lysine to D-lysine direction than in the reverse reaction r

Organism

Organism UniProt Comment Textmining
uncultured bacterium C7ACH5 from garden soil, the lyr gene may have only recently evolved from Escherichia coli N-acetyl-gamma-glutamyl-phosphate reductase and Deinococcus radiodurans N-acyl amino acid racemase, the partial regions of both enzymes might have been combined to evolve a novel enzyme, in which the new catalytic sites are created for catalyzing the racemization of lysine
-

Purification (Commentary)

Purification (Comment) Organism
by nickel chelate affinity chromatography uncultured bacterium

Specific Activity [micromol/min/mg]

Specific Activity Minimum [┬Ámol/min/mg] Specific Activity Maximum [┬Ámol/min/mg] Comment Organism
1.68
-
substrate 10 mM D-lysine, in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium
3.61
-
substrate 10 mM L-lysine, in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
L-lysine
-
uncultured bacterium D-lysine enzyme exhibits higher specific activity toward lysine in the L-lysine to D-lysine direction than in the reverse reaction r

Synonyms

Synonyms Comment Organism
lyr
-
uncultured bacterium
lysine racemase
-
uncultured bacterium

Temperature Optimum [┬░C]

Temperature Optimum [┬░C] Temperature Optimum Maximum [┬░C] Comment Organism
30
-
maximum activity uncultured bacterium

Temperature Stability [┬░C]

Temperature Stability Minimum [┬░C] Temperature Stability Maximum [┬░C] Comment Organism
50
-
the enzyme shows considerable stability at 50┬░C, with a half-life of about 3 days uncultured bacterium

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.16
-
D-Lysine in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium
5.1
-
L-lysine in 50 mM Tris-HCl (pH 8.0), 2 mM cobalt chloride at 30┬░C uncultured bacterium

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
8
-
50 mM Tris-HCl uncultured bacterium

pH Stability

pH Stability pH Stability Maximum Comment Organism
5 9 about 15% of maximal activity is observed at pHs of below 5 and above 9 uncultured bacterium