Information on EC 4.2.2.6 - oligogalacturonide lyase

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The enzyme appears in viruses and cellular organisms

EC NUMBER
COMMENTARY hide
4.2.2.6
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RECOMMENDED NAME
GeneOntology No.
oligogalacturonide lyase
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
4-(4-deoxy-alpha-D-galact-4-enuronosyl)-D-galacturonate = 2 5-dehydro-4-deoxy-D-glucuronate
show the reaction diagram
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
elimination
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-
-
-
PATHWAY
BRENDA Link
KEGG Link
MetaCyc Link
Pentose and glucuronate interconversions
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SYSTEMATIC NAME
IUBMB Comments
oligogalacturonide lyase
Also catalyses eliminative removal of unsaturated terminal residues from oligosaccharides of D-galacturonate.
CAS REGISTRY NUMBER
COMMENTARY hide
9031-33-8
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ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
Erwinia aroidea
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-
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Manually annotated by BRENDA team
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Manually annotated by BRENDA team
subsp. enterocolitica, gene ogl, locus YE1876
UniProt
Manually annotated by BRENDA team
subsp. enterocolitica, gene ogl, locus YE1876
UniProt
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
metabolism
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
1-methyl-di-D-galacturonate
?
show the reaction diagram
-
alpha-(1-4)-linked
-
?
1-methyl-tri-D-galacturonate
?
show the reaction diagram
-
alpha-(1-4)-linked
-
?
3-methyl-tri-D-galacturonate
?
show the reaction diagram
-
best substrate, alpha-(1-4)-linked
-
?
4-(4-deoxy-alpha-D-gluc-4-enuronosyl)-D-galacturonate
2 5-dehydro-4-deoxy-D-glucuronate
show the reaction diagram
4-O-(4-deoxy-alpha-L-threo-hex-4-enopyranuronosyl)-beta-D-galactopyranuronic acid
4-deoxy-alpha-L-threo-hex-4-enopyranuronic acid + D-galacturonic acid
show the reaction diagram
Erwinia aroidea
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i.e. O-(4-deoxy-beta-L-5-threo-hexopyranos-4-enyluronic acid)-(1,4)-D-galacturonic acid
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acid-soluble pectic acid
4-deoxy-5-keto-D-fructuronic acid
show the reaction diagram
Erwinia aroidea
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-
the first product is 4,5-unsaturated galacturonic acid and this compound is converted into 4-deoxy-5-keto-D-fructuronic acid by an unknown mechanism
?
acid-soluble pectic acid
4-deoxy-5-keto-D-glucuronic acid
show the reaction diagram
-
very slow degradation
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DELTA4,5-unsaturated di-D-galacturonate
?
show the reaction diagram
-
alpha-(1-4)-linked
-
?
DELTA4,5-unsaturated tri-D-galacturonate
?
show the reaction diagram
-
alpha-(1-4)-linked
-
?
di-D-galacturonate
?
show the reaction diagram
-
-
-
?
digalacturonic acid
4-deoxy-5-keto-D-fructuronic acid
show the reaction diagram
digalacturonic acid
4-deoxy-5-keto-D-glucuronic acid + galacturonic acid
show the reaction diagram
-
-
-
?
digalacturonic acid
?
show the reaction diagram
tetragalacturonic acid
4-deoxy-5-keto-D-fructuronic acid + ?
show the reaction diagram
Erwinia aroidea
-
-
the first product is 4,5-unsaturated galacturonic acid and this compound is converted into 4-deoxy-5-keto-D-fructuronic acid by an unknown mechanism
?
tetragalacturonic acid
4-deoxy-5-keto-D-glucuronic acid + ?
show the reaction diagram
-
-
-
?
tetragalacturonic acid
?
show the reaction diagram
tri-D-galacturonate
?
show the reaction diagram
-
-
-
?
trigalacturonic acid
4-deoxy-5-keto-D-fructuronic acid
show the reaction diagram
Erwinia aroidea
-
-
the first product is 4,5-unsaturated galacturonic acid and this compound is converted into 4-deoxy-5-keto-D-fructuronic acid by an unknown mechanism
?
trigalacturonic acid
4-deoxy-5-keto-D-glucuronic acid + digalacturonic acid + galacturonic acid
show the reaction diagram
-
-
-
?
trigalacturonic acid
?
show the reaction diagram
unsaturated digalacturonic acid
4-deoxy-5-keto-D-fructuronic acid + ?
show the reaction diagram
unsaturated digalacturonic acid
4-deoxy-5-keto-D-glucuronic acid + ?
show the reaction diagram
-
-
-
?
unsaturated trigalacturonic acid
4-deoxy-5-keto-D-fructuronic acid + ?
show the reaction diagram
unsaturated trigalacturonic acid
4-deoxy-5-keto-D-glucuronic acid + unsaturated digalacturonic acid
show the reaction diagram
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-
-
?
additional information
?
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NATURAL SUBSTRATES
NATURAL PRODUCTS
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
4-(4-deoxy-alpha-D-gluc-4-enuronosyl)-D-galacturonate
2 5-dehydro-4-deoxy-D-glucuronate
show the reaction diagram
additional information
?
-
Erwinia aroidea
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two pathways are involved in metabolism of pectic substances: one route through galacturonic acid, involving galacturonic acid isomerase and the other through unsaturated digalacturonic acid, involving EC 4.2.2.5, with the formation of 4-deoxy-5-hexosulose uronic acid. Both pathways yield 2-keto-3-deoxy-D-gluconic acid as common product
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METALS and IONS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
Co2+
-
strong activation
Fe2+
-
strong activation
Ni2+
-
strong activation
INHIBITORS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
pectate
substrate inhibition at high concentrations
ACTIVATING COMPOUND
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.15 - 5.3
digalacturonic acid
0.12
trigalacturonic acid
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-
1.6
unsaturated digalacturonic acid
Erwinia aroidea
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additional information
additional information
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SPECIFIC ACTIVITY [µmol/min/mg]
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
0.0053
Erwinia aroidea
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-
additional information
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
7.2
Erwinia aroidea
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-
7.3 - 7.7
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pH RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
6.5 - 8
Erwinia aroidea
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pH 6.5: about 45% of maximal activity, pH 8.0: about 55% of maximal activity
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
44124
-
x * 44124, calculation from nucleotide sequence
SUBUNITS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
Crystallization/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
purified recombinant detagged YeOGL, hanging drop vapor diffusion method, 12.5 mg/ml protein in 20 mM Tris-HCl, precipitation from 0.2 M CaCl2, 0.1 M NaOAc, pH 4.8, 20% PEG 3350, and cryoprotection by 15% ethylene glycol, 18°C, X-ray diffraction structure determination and analysis at 1.65 A resolution
Purification/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
recombinant N-terminally His-tagged YeOGL from Escherichia coli by nickel affinity chromatography, ultrafiltration, His-tag cleavage through thrombin, and gel filtration
Cloned/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
gene ogl, phylogenetic tree of the OGL family, expression of YeOGL containing a thrombin-cleavable N-terminal His6 tag in Escherichia coli BL21-pLysS (DE3) cells
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