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Literature summary extracted from

  • Sukpipat, W.; Komeda, H.; Prasertsan, P.; Asano, Y.
    Purification and characterization of xylitol dehydrogenase with L-arabitol dehydrogenase activity from the newly isolated pentose-fermenting yeast Meyerozyma caribbica 5XY2 (2016), J. Biosci. Bioeng., 123, 20-27.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
1.1.1.9 gene xyl2, DNA and amino acid sequence determination and analysis, cloning in Escherichia coli strain JM109, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3) Meyerozyma caribbica
1.1.1.12 gene xyl2, DNA and amino acid sequence determination and analysis, cloning in Escherichia coli strain JM109, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3) Meyerozyma caribbica

Inhibitors

EC Number Inhibitors Comment Organism Structure
1.1.1.9 EDTA
-
 Meyerozyma caribbica
1.1.1.9 iodoacetic acid
-
 Meyerozyma caribbica
1.1.1.9 o-phenanthroline
-
 Meyerozyma caribbica
1.1.1.9 Tiron
-
 Meyerozyma caribbica

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.1.1.9 0.1
-
 xylitol recombinant enzyme, pH 7.0, 30°C Meyerozyma caribbica
1.1.1.9 0.11
-
 NAD+ at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 0.11
-
 xylitol native enzyme, pH 7.0, 30°C Meyerozyma caribbica
1.1.1.9 15.4
-
 xylitol recombinant enzyme, pH 7.0, 30°C Meyerozyma caribbica
1.1.1.9 15.8
-
 ribitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 16
-
 xylitol native enzyme, pH 7.0, 30°C Meyerozyma caribbica
1.1.1.9 16.1
-
 xylitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 21.2
-
 D-sorbitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 31.1
-
 L-arabitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.12 31.1
-
 L-arabinitol recombinant enzyme, pH 7.0, 30°C Meyerozyma caribbica

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
1.1.1.9 Zn2+ zinc metalloenzyme Meyerozyma caribbica
1.1.1.12 Zn2+ zinc metalloenzyme Meyerozyma caribbica

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
1.1.1.9 39000
-
-
 Meyerozyma caribbica
1.1.1.9 195000
-
 gel filtration Meyerozyma caribbica
1.1.1.12 39000
-
-
 Meyerozyma caribbica
1.1.1.12 195000
-
 native enzyme, gel filtration Meyerozyma caribbica

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
1.1.1.9 xylitol + NAD+ Meyerozyma caribbica
-
 D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+ Meyerozyma caribbica preferred substrate D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+ Meyerozyma caribbica 5XY2 preferred substrate D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+ Meyerozyma caribbica 5XY2
-
 D-xylulose + NADH + H+
-
 ?
1.1.1.12 L-arabinitol + NAD+ Meyerozyma caribbica
-
 L-xylulose + NADH + H+
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
1.1.1.9 Meyerozyma caribbica
-
-
-
1.1.1.9 Meyerozyma caribbica A0A1B4XTS0 pentose-fermenting strain isolated from an alcohol fermentation starter in Thailand
-
1.1.1.9 Meyerozyma caribbica 5XY2
-
-
-
1.1.1.9 Meyerozyma caribbica 5XY2 A0A1B4XTS0 pentose-fermenting strain isolated from an alcohol fermentation starter in Thailand
-
1.1.1.12 Meyerozyma caribbica A0A1B4XTS0 pentose-fermenting strain isolated from an alcohol fermentation starter in Thailand
-
1.1.1.12 Meyerozyma caribbica 5XY2 A0A1B4XTS0 pentose-fermenting strain isolated from an alcohol fermentation starter in Thailand
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.1.1.9 DEAEToyopearl 650 M column chromatography, butyl-Toyopearl 650 M column chromatography, MonoQ column chromatography, and Superdex 200 gel filtration Meyerozyma caribbica
1.1.1.9 native enzyme by ammonium sulfate fractionation, anion exchange chromatography, hydrophobic interation chromatography, and another different step of anion exchange chromatography, followed by gel filtration. Recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity and anion exchange chromatography Meyerozyma caribbica
1.1.1.12 native enzyme by ammonium sulfate fractionation, anion exchange chromatography, hydrophobic interation chromatography, and another different step of anion exchange chromatography, followed by gel filtration. Recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity and anion exchange chromatography Meyerozyma caribbica

Source Tissue

EC Number Source Tissue Comment Organism Textmining
1.1.1.9 cell culture strain 5XY2 catabolize L-arabinose as well as D-glucose and D-xylose in fermentation Meyerozyma caribbica
-
1.1.1.12 cell culture strain 5XY2 catabolizes L-arabinose as well as D-glucose and D-xylose in fermentation Meyerozyma caribbica
-

Specific Activity [micromol/min/mg]

EC Number Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
1.1.1.9 0.08
-
 crude enzyme, at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 2
-
 purified recombinant enzyme, pH 7.0, 40°C Meyerozyma caribbica
1.1.1.9 4.9
-
 after purification, at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.12 4.9
-
 purified native enzyme, pH 7.0, 40°C, substrates L-arabinitol and NAD+ Meyerozyma caribbica

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.1.1.9 D-sorbitol + NAD+
-
 Meyerozyma caribbica D-fructose + NADH + H+
-
 r
1.1.1.9 D-sorbitol + NAD+
-
 Meyerozyma caribbica 5XY2 D-fructose + NADH + H+
-
 r
1.1.1.9 D-sorbitol + NAD+
-
 Meyerozyma caribbica ? + NADH + H+
-
 ?
1.1.1.9 D-sorbitol + NAD+
-
 Meyerozyma caribbica 5XY2 ? + NADH + H+
-
 ?
1.1.1.9 L-arabitol + NAD+ the enzyme also has L-arabitol dehydrogenase activity (20.1% activity compared to xylitol) Meyerozyma caribbica L-xylulose + NADH + H+
-
 ?
1.1.1.9 L-arabitol + NAD+ the enzyme also has L-arabitol dehydrogenase activity (20.1% activity compared to xylitol) Meyerozyma caribbica 5XY2 L-xylulose + NADH + H+
-
 ?
1.1.1.9 additional information no activity with D-mannitol, erythritol, and D-arabitol. Very low activity with NADP+ Meyerozyma caribbica ?
-
 ?
1.1.1.9 additional information the enzyme exhibits broad specificity to polyols, such as xylitol, D-sorbitol, ribitol, and L-arabinitol. Xylitol is the preferred substrate, but native and recombinant enzyme McXDH exhibits relative activities toward L-arabinitol of approximately 20% that toward xylitol. No activity with D-mannitol, erythritol, and D-arabinitol Meyerozyma caribbica ?
-
 ?
1.1.1.9 additional information no activity with D-mannitol, erythritol, and D-arabitol. Very low activity with NADP+ Meyerozyma caribbica 5XY2 ?
-
 ?
1.1.1.9 additional information the enzyme exhibits broad specificity to polyols, such as xylitol, D-sorbitol, ribitol, and L-arabinitol. Xylitol is the preferred substrate, but native and recombinant enzyme McXDH exhibits relative activities toward L-arabinitol of approximately 20% that toward xylitol. No activity with D-mannitol, erythritol, and D-arabinitol Meyerozyma caribbica 5XY2 ?
-
 ?
1.1.1.9 ribitol + NAD+
-
 Meyerozyma caribbica ?
-
 ?
1.1.1.9 ribitol + NAD+
-
 Meyerozyma caribbica 5XY2 ?
-
 ?
1.1.1.9 ribitol + NAD+ reaction of EC 1.1.1.56, ribitol 2-dehydrogenase Meyerozyma caribbica D-ribulose + NADH + H+
-
 ?
1.1.1.9 ribitol + NAD+ reaction of EC 1.1.1.56, ribitol 2-dehydrogenase Meyerozyma caribbica 5XY2 D-ribulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+
-
 Meyerozyma caribbica D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+ preferred substrate Meyerozyma caribbica D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+ preferred substrate Meyerozyma caribbica 5XY2 D-xylulose + NADH + H+
-
 ?
1.1.1.9 xylitol + NAD+
-
 Meyerozyma caribbica 5XY2 D-xylulose + NADH + H+
-
 ?
1.1.1.12 L-arabinitol + NAD+
-
 Meyerozyma caribbica L-xylulose + NADH + H+
-
 ?
1.1.1.12 additional information the enzyme exhibits broad specificity to polyols, such as xylitol, D-sorbitol, ribitol (cf. EC 1.1.1.56), and L-arabitol. Xylitol is the preferred substrate, but native and recombinant enzyme McXDH exhibits relative activities toward L-arabinitol of approximately 20% that toward xylitol Meyerozyma caribbica ?
-
 ?
1.1.1.12 additional information the enzyme exhibits broad specificity to polyols, such as xylitol, D-sorbitol, ribitol (cf. EC 1.1.1.56), and L-arabitol. Xylitol is the preferred substrate, but native and recombinant enzyme McXDH exhibits relative activities toward L-arabinitol of approximately 20% that toward xylitol Meyerozyma caribbica 5XY2 ?
-
 ?

Subunits

EC Number Subunits Comment Organism
1.1.1.9 homopentamer
-
 Meyerozyma caribbica
1.1.1.9 homopentamer 5 * 39000, SDS-PAGE Meyerozyma caribbica
1.1.1.12 homopentamer 5 * 39000, SDS-PAGE Meyerozyma caribbica

Synonyms

EC Number Synonyms Comment Organism
1.1.1.9 XDH
-
 Meyerozyma caribbica
1.1.1.9 XYL2
-
 Meyerozyma caribbica
1.1.1.9 xylitol dehydrogenase
-
 Meyerozyma caribbica
1.1.1.12 L-arabitol dehydrogenase
-
 Meyerozyma caribbica
1.1.1.12 LAD
-
 Meyerozyma caribbica
1.1.1.12 XYL2
-
 Meyerozyma caribbica

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
1.1.1.9 40
-
-
 Meyerozyma caribbica
1.1.1.12 40
-
-
 Meyerozyma caribbica

Temperature Range [°C]

EC Number Temperature Minimum [°C] Temperature Maximum [°C] Comment Organism
1.1.1.9 10 55 activity range, inactive at 60°C Meyerozyma caribbica
1.1.1.9 45 55 the enzyme partially loses its activity at 45-55°C and also completely loses activity at temperatures greater than 60°C Meyerozyma caribbica
1.1.1.12 10 55 activity range, inactive at 60°C Meyerozyma caribbica

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
1.1.1.9 30 45 the enzyme exhibits activities of approximately 81% and 51% after being incubated at 30°C and 35°C, respectively, for 30 min. The enzyme completely loses its activity at temperatures greater than 45°C Meyerozyma caribbica

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1.1.1.9 1.12
-
 xylitol recombinant enzyme, pH 7.0, 30°C Meyerozyma caribbica
1.1.1.9 3.35
-
 L-arabitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 4.5
-
 ribitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 8.28
-
 D-sorbitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 18
-
 xylitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.12 0.108
-
 L-arabinitol recombinant enzyme, pH 7.0, 30°C Meyerozyma caribbica

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
1.1.1.9 9
-
 recombinant enzyme Meyerozyma caribbica
1.1.1.9 9.5
-
-
 Meyerozyma caribbica
1.1.1.9 9.5
-
 native enzyme Meyerozyma caribbica
1.1.1.12 9
-
 recombinant enzyme Meyerozyma caribbica
1.1.1.12 9.5
-
 native enzyme Meyerozyma caribbica

pH Range

EC Number pH Minimum pH Maximum Comment Organism
1.1.1.9 4 11 the enzyme lost its activity at pH lower than 4.0 and higher than 11.0, corresponding to NAD+ which is unstable at pH values greater than 10.5 Meyerozyma caribbica
1.1.1.9 4 11 activity range, inactive above or below Meyerozyma caribbica
1.1.1.12 4 11 activity range, inactive above or below Meyerozyma caribbica

Cofactor

EC Number Cofactor Comment Organism Structure
1.1.1.9 NAD+
-
 Meyerozyma caribbica
1.1.1.9 NAD+ preferred cofactor Meyerozyma caribbica
1.1.1.9 NADP+ low activity Meyerozyma caribbica
1.1.1.12 NAD+ preferred cofactor Meyerozyma caribbica
1.1.1.12 NADP+ low activity Meyerozyma caribbica

General Information

EC Number General Information Comment Organism
1.1.1.9 evolution the enzyme belongs to a medium-chain dehydrogenase/reductase (MDR) superfamily and a subfamily of polyol dehydrogenase, PDH Meyerozyma caribbica
1.1.1.12 evolution the enzyme belongs to a medium-chain dehydrogenase/reductase (MDR) superfamily and a subfamily of polyol dehydrogenase, PDH Meyerozyma caribbica

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
1.1.1.9 0.11
-
 L-arabitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 0.29
-
 ribitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 0.39
-
 D-sorbitol at pH 7.0 and 30°C Meyerozyma caribbica
1.1.1.9 1.12
-
 xylitol at pH 7.0 and 30°C Meyerozyma caribbica