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Literature summary extracted from

  • Ochiai, A.; Itoh, T.; Kawamata, A.; Hashimoto, W.; Murata, K.
    Plant cell wall degradation by saprophytic Bacillus subtilis strains: gene clusters responsible for rhamnogalacturonan depolymerization (2007), Appl. Environ. Microbiol., 73, 3803-3813.
    View publication on PubMedView publication on EuropePMC

Activating Compound

EC Number Activating Compound Comment Organism Structure
4.2.2.24 D-glucose 5 mM, 1.2fold activation Bacillus subtilis
4.2.2.24 D-glucuronic acid 5 mM, 1.25fold activation Bacillus subtilis
4.2.2.24 D-sucrose 5 mM, 1.2fold activation Bacillus subtilis
4.2.2.24 D-xylose 5 mM, 1.37fold activation Bacillus subtilis
4.2.2.24 L-rhamnose 5 mM, 1.24fold activation Bacillus subtilis

Cloned(Commentary)

EC Number Cloned (Comment) Organism
4.2.2.23 expression in Escherichia coli and Bacillus subtilis strain natto Bacillus subtilis
4.2.2.24 expression in Escherichia coli and Bacillus subtilis strain natto Bacillus subtilis

Inhibitors

EC Number Inhibitors Comment Organism Structure
4.2.2.24 D-galacturonic acid 5 mM, 41% loss of activity Bacillus subtilis
4.2.2.24 EDTA 10 mM, complete loss of activity Bacillus subtilis
4.2.2.24 EGTA 10 mM, complete loss of activity Bacillus subtilis
4.2.2.24 iodoacetic acid 1 mM, 45% loss of activity Bacillus subtilis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
4.2.2.23 additional information
-
 rhamnogalacturonan I Km-value is 0.35 mg/ml, pH 7.5, 30°C Bacillus subtilis
4.2.2.24 additional information
-
 rhamnogalacturonan I oligosaccharide Km-value is 1.9 mg/ml, pH 7.5, 30°C Bacillus subtilis

Localization

EC Number Localization Comment Organism GeneOntology No. Textmining
4.2.2.23 extracellular
-
 Bacillus subtilis
-
-
4.2.2.24 extracellular
-
 Bacillus subtilis
-
-

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
4.2.2.23 Ca2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.23 Co2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.23 Mn2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.23 Zn2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.24 Ca2+ 1 mM, addition the chelator-treated enzyme partly restores activity Bacillus subtilis
4.2.2.24 Co2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.24 Mn2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis
4.2.2.24 Zn2+ 1 mM, addition the chelator-treated enzyme restores activity Bacillus subtilis

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
4.2.2.23 64444
-
 1 * 64444, mature form of YesW including the C-terminal 8His-tag Bacillus subtilis
4.2.2.23 65000
-
 gel filtration Bacillus subtilis
4.2.2.23 68000
-
 1 * 68000, SDS-PAGE Bacillus subtilis
4.2.2.24 68000
-
 1 * 68000, SDS-PAGE Bacillus subtilis
4.2.2.24 70000
-
 gel filtration Bacillus subtilis
4.2.2.24 687544
-
 1 * 687544, mature form of YesX including the C-terminal 8His-tag Bacillus subtilis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
4.2.2.23 rhamnogalacturonan I Bacillus subtilis the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.23 rhamnogalacturonan I Bacillus subtilis 168 the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide Bacillus subtilis the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide Bacillus subtilis 168 the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
4.2.2.23 Bacillus subtilis O31526
-
-
4.2.2.23 Bacillus subtilis 168 O31526
-
-
4.2.2.24 Bacillus subtilis O31527
-
-
4.2.2.24 Bacillus subtilis 168 O31527
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
4.2.2.23 recombinant enzyme from Escherichia coli cells Bacillus subtilis
4.2.2.24 recombinant enzyme from Escherichia coli cells Bacillus subtilis

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4.2.2.23 rhamnogalacturonan I the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR Bacillus subtilis rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.23 rhamnogalacturonan I rhamnogalacturonan I from potatoes. YesW acts on the substrate endolytically and releases both disaccharide and larger saccharides. The enzyme mainly acts on rhamnogalacturonan I backbone, slight activity on polygalacturonan Bacillus subtilis rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.23 rhamnogalacturonan I the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR Bacillus subtilis 168 rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.23 rhamnogalacturonan I rhamnogalacturonan I from potatoes. YesW acts on the substrate endolytically and releases both disaccharide and larger saccharides. The enzyme mainly acts on rhamnogalacturonan I backbone, slight activity on polygalacturonan Bacillus subtilis 168 rhamnogalacturonan I oligosaccharides with alpha-L-rhamnopyranose at the reducing end and 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the nonreducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR Bacillus subtilis 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide rhamnogalacturonan I from potatoes. YesX acts on the substrate exolytically and releases disaccharides as major product. The enzyme mainly acts on rhamnogalacturonan I backbone, slight activity on polygalacturonan Bacillus subtilis 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide the enzyme is part of the degradation system of rhamnogalacturonan type I. YesW catalyzes the initial cleavage of the rhamnogalacturonan I main chain, and the resultant oligosaccharides are converted to disaccharides through the extracellular exotype YesX reaction. The disaccharide is finally degraded into its constituent monosaccharides through the reaction of intracellular unsaturated galacturonyl hydrolases YesR and YteR Bacillus subtilis 168 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?
4.2.2.24 rhamnogalacturonan I oligosaccharide rhamnogalacturonan I from potatoes. YesX acts on the substrate exolytically and releases disaccharides as major product. The enzyme mainly acts on rhamnogalacturonan I backbone, slight activity on polygalacturonan Bacillus subtilis 168 2-O-(4-deoxy-beta-L-threo-hex-4-enopyranuronosyl)-alpha-L-rhamnopyranose + shortened rhamnogalacturonan oligosaccharide containing one 4-deoxy-4,5-unsaturated D-galactopyranosyluronic acid at the non-reducing end
-
 ?

Subunits

EC Number Subunits Comment Organism
4.2.2.23 monomer 1 * 68000, SDS-PAGE Bacillus subtilis
4.2.2.23 monomer 1 * 64444, mature form of YesW including the C-terminal 8His-tag Bacillus subtilis
4.2.2.24 monomer 1 * 68000, SDS-PAGE Bacillus subtilis
4.2.2.24 monomer 1 * 687544, mature form of YesX including the C-terminal 8His-tag Bacillus subtilis

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
4.2.2.23 30
-
 assay at Bacillus subtilis
4.2.2.23 65
-
-
 Bacillus subtilis
4.2.2.24 30
-
 assay at Bacillus subtilis
4.2.2.24 60
-
-
 Bacillus subtilis

Temperature Range [°C]

EC Number Temperature Minimum [°C] Temperature Maximum [°C] Comment Organism
4.2.2.23 40 75 40°C: about 45% of maximal activity, 75°C: about 50% of maximal activity Bacillus subtilis
4.2.2.24 45 75 40°C: about 40% of maximal activity, 75°C: about 50% of maximal activity Bacillus subtilis

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
4.2.2.23 60
-
 5 min, stable below Bacillus subtilis
4.2.2.24 50
-
 5 min, stable below Bacillus subtilis

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
4.2.2.23 8
-
-
 Bacillus subtilis
4.2.2.24 8.5
-
-
 Bacillus subtilis

pH Range

EC Number pH Minimum pH Maximum Comment Organism
4.2.2.23 7 9 pH 7.0: about 40% of maximal activity, pH 9.0: about 50% of maximal activity Bacillus subtilis
4.2.2.24 7.5 10 pH 7.5: about 40% of maximal activity, pH 10.0: about 40% of maximal activity Bacillus subtilis