Information on EC 4.2.2.2 - pectate lyase

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The expected taxonomic range for this enzyme is: Eukaryota, Bacteria

EC NUMBER
COMMENTARY hide
4.2.2.2
-
RECOMMENDED NAME
GeneOntology No.
pectate lyase
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
Eliminative cleavage of (1->4)-alpha-D-galacturonan to give oligosaccharides with 4-deoxy-alpha-D-galact-4-enuronosyl groups at their non-reducing ends
show the reaction diagram
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-
-
-
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
elimination
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-
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PATHWAY
BRENDA Link
KEGG Link
MetaCyc Link
Pentose and glucuronate interconversions
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-
SYSTEMATIC NAME
IUBMB Comments
(1->4)-alpha-D-galacturonan lyase
Favours pectate, the anion, over pectin, the methyl ester (which is the preferred substrate of EC 4.2.2.10, pectin lyase).
CAS REGISTRY NUMBER
COMMENTARY hide
9015-75-2
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ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
L. Heynh. ecotype Columbia
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-
Manually annotated by BRENDA team
strain MIUG 16
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-
Manually annotated by BRENDA team
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Manually annotated by BRENDA team
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-
Manually annotated by BRENDA team
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Manually annotated by BRENDA team
strain BK2
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-
Manually annotated by BRENDA team
isolated from fermenting cocoa beans
UniProt
Manually annotated by BRENDA team
BP-23
SwissProt
Manually annotated by BRENDA team
strain BP-7
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-
Manually annotated by BRENDA team
Bacillus sp. KSM-P7
strain KSM-P7
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-
Manually annotated by BRENDA team
strain P4-N
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-
Manually annotated by BRENDA team
RK9
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-
Manually annotated by BRENDA team
strain RN1
UniProt
Manually annotated by BRENDA team
isolated from fermenting cocoa beans
UniProt
Manually annotated by BRENDA team
IFO3134
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-
Manually annotated by BRENDA team
isolated from soil of a saline-alkaline field in Tianjin, China, gene Bsu11286Pel
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-
Manually annotated by BRENDA team
strain WSHB04-02
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-
Manually annotated by BRENDA team
; pectate lyase precursor
SwissProt
Manually annotated by BRENDA team
Clostridium stercorarium
Clostridium stercorarium F-9
strain F-9
SwissProt
Manually annotated by BRENDA team
gene pelA
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-
Manually annotated by BRENDA team
single copy gene pecCl1
UniProt
Manually annotated by BRENDA team
3937
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-
Manually annotated by BRENDA team
nine pel genes, pelA to pelE, pelI, pelL, pelX, and pelZ
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-
Manually annotated by BRENDA team
Erwinia aroidea
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-
-
Manually annotated by BRENDA team
f. sp. lycopersici
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-
Manually annotated by BRENDA team
strain NCIM 1276
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-
Manually annotated by BRENDA team
gene pel-2
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-
Manually annotated by BRENDA team
gene pel-2
UniProt
Manually annotated by BRENDA team
subsp. tabacum, gene pel-2
UniProt
Manually annotated by BRENDA team
variant acc 7235
UniProt
Manually annotated by BRENDA team
-
UniProt
Manually annotated by BRENDA team
strain D32
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-
Manually annotated by BRENDA team
strain D32
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-
Manually annotated by BRENDA team
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-
Manually annotated by BRENDA team
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Manually annotated by BRENDA team
Alpine strain A15; Siberian strain AG25
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Manually annotated by BRENDA team
Musa acuminata Harichhal
strain Harichhal
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-
Manually annotated by BRENDA team
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-
Manually annotated by BRENDA team
Neosartorya fischeri
-
UniProt
Manually annotated by BRENDA team
TOA-1
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-
Manually annotated by BRENDA team
TOA-1
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-
Manually annotated by BRENDA team
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UniProt
Manually annotated by BRENDA team
gene pelN
UniProt
Manually annotated by BRENDA team
strain BP-23
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-
Manually annotated by BRENDA team
IFO3830
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-
Manually annotated by BRENDA team
subsp. carotovorum
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Manually annotated by BRENDA team
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Manually annotated by BRENDA team
IFO 3439
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Manually annotated by BRENDA team
isolated from soil of Flaming Mountain in the Turpan Basin of Xinjiang, China, gene pl-str
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-
Manually annotated by BRENDA team
strain B1
UniProt
Manually annotated by BRENDA team
nov., pectate lyase a and pectate lyase b
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Manually annotated by BRENDA team
ATCC 33768
SwissProt
Manually annotated by BRENDA team
gene pelB cloned from the metagenomic DNA of alkaline environment soils
UniProt
Manually annotated by BRENDA team
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UniProt
Manually annotated by BRENDA team
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-
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
evolution
malfunction
physiological function
additional information
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
citrus pectin
?
show the reaction diagram
citrus pectin
unsaturated tetragalacturonate
show the reaction diagram
citrus pectin P9311
?
show the reaction diagram
citrus pectin P9436
?
show the reaction diagram
citrus pectin P9561
?
show the reaction diagram
de-esterified pectin
4,5-unsaturated oligogalacturonates
show the reaction diagram
PEL can randomly catalyze the apha(1-4) linkages of de-esterified pectin by beta-elimination
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-
?
digalacturonic acid
?
show the reaction diagram
esterified pectin
?
show the reaction diagram
94% esterified pectin. 97% of the activity with polygalacturonic acid
-
?
esterified pectin
unsaturated tetragalacturonic acid
show the reaction diagram
hexagalacturonic acid
?
show the reaction diagram
lime pectin
?
show the reaction diagram
-
with 75% methyl esterification
-
?
methyl esterified pectin
?
show the reaction diagram
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citrus pectin, 7% methylation
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-
?
oligogalacturonate
unsaturated digalacturonate
show the reaction diagram
oligogalacturonic acid
?
show the reaction diagram
-
the enzyme acts on polygalacturonic acids and oligogalacturonic acids over digalacturonic acid and better on the larger galacturonic acids until at least DP8
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?
pectate
?
show the reaction diagram
pectic acid
oligouronides of heterogeneous size
show the reaction diagram
pectic acid amide
?
show the reaction diagram
pectin
?
show the reaction diagram
pectin
unsaturated oligogalacturonides
show the reaction diagram
-
esterified citrus pectin
-
?
pentagalacturonic acid
saturated digalacturonic acid + unsaturated trigalacturonic acid + saturated trigalacturonic acid + unsaturated digalacturonic acid
show the reaction diagram
polygalacturonate
?
show the reaction diagram
polygalacturonate
unsaturated 4,5-digalacturonate + unsaturated 4,5-trigalacturonate
show the reaction diagram
polygalacturonate
unsaturated 4,5-digalacturonate + unsaturated 4,5-trigalacturonate + ?
show the reaction diagram
polygalacturonate
unsaturated galacturonic acid polymer
show the reaction diagram
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-
-
-
?
polygalacturonate
unsaturated galacturonides
show the reaction diagram
polygalacturonate
unsaturated oligo-galacturonides
show the reaction diagram
polygalacturonate
unsaturated oligogalacturonides
show the reaction diagram
polygalacturonate
unsaturated polygalacturonic acid
show the reaction diagram
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-
-
-
?
polygalacturonate
unsaturated tetragalacturonate
show the reaction diagram
polygalacturonate
unsaturated tetragalacturonic acid
show the reaction diagram
polygalacturonate
unsaturated trigalacturonate + unsaturated oligogalacturonates
show the reaction diagram
-
pectate lyase cleaves the alpha-1,4 glycosidic bonds of polygalacturonate via a beta-elimination reaction
major product
-
?
polygalacturonic
?
show the reaction diagram
analysis of polygalacturonic acid degradation products by electrospray ionization-mass spectrometry reveal that the degradation products are unsaturated trigalacturonic acid and unsaturated bigalacturonic acid, which confirms that the enzyme catalyzes a trans-elimination reaction
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-
?
polygalacturonic acid
4,5-unsaturated digalacturonic acid + 4,5-unsaturated trigalacturonic acid + oligogalacturonic acid
show the reaction diagram
polygalacturonic acid
?
show the reaction diagram
polygalacturonic acid
DELTA4,5-unsaturated oligogalacturonides
show the reaction diagram
-
-
?
polygalacturonic acid
unsaturated galacturonate
show the reaction diagram
polygalacturonic acid
unsaturated oligogalacturonate
show the reaction diagram
polygalacturonic acid
unsaturated oligogalacturonate + ?
show the reaction diagram
polygalacturonic acid
unsaturated oligogalacturonide
show the reaction diagram
polygalacturonic acid
unsaturated oligogalacturonides
show the reaction diagram
polypectate
?
show the reaction diagram
protopectin
pectin + ?
show the reaction diagram
reduced tetragalacturonic acid
galacturonic acid + reduced trigalacturonic acid
show the reaction diagram
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-
-
?
tetragalacturonate
?
show the reaction diagram
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-
-
-
?
tetragalacturonic acid
altered trigalacturonic acid + digalacturonic acid + altered digalacturionic acid + D-galacturonic acid
show the reaction diagram
trigalacturonate
?
show the reaction diagram
trigalacturonic acid
?
show the reaction diagram
trigalacturonic acid
altered digalacturonic acid + galacturonic acid
show the reaction diagram
additional information
?
-
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
pectin
?
show the reaction diagram
polygalacturonic acid
?
show the reaction diagram
additional information
?
-
METALS and IONS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
Ag+
1 mM, stimulates actvity up to 120%
CaCl2
-
activates
Fe3+
1 mM, stimulates actvity up to 348%
Hg2+
-
1 mM, can replace Ca2+ in activation
Ni2+
activates 191% at 0.2 mM
Se2+
activates 158% at 0.2 mM
Triton X-100
activates slightly at 0.5-1 mM
Tween-20
activates slightly at 1 mM
additional information
INHIBITORS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
2,3-Butanedione
-
-
2,4,6-Trinitrobenzenesulfonate
-
1 mM, 73% inhibition
2-hydroxy-5-nitrophenyl bromide
-
-
2-mercaptoethanol
acetic acid
-
at 50 mM and above
ascorbic acid
-
48% loss of activity at 0.1 mM, complete inactivation at 1.0 mM
Butyric acid
-
at 200 mM and above
caffeic acid
-
42% inhibition at 0.01 mM, 67% inhibition at 0.05 mM
calcium-alginate
-
calcium-alginate concentration levels higher or lower 38.5 units/ml result in reduced enzyme activity
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catechol
-
24% inhibition at 0.01 mM, 52% inhibition at 0.05 mM
chlorogenic acid
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27% inhibition at 0.01 mM, 68% inhibition at 0.05 mM
Cinnamic acid
-
40% inhibition at 0.01 mM, 67% inhibition at 0.05 mM
diethyldicarbonate
-
-
dithiothreitol
epicatechin
ethylene glycol
-
at 50 mM and above
ferulic acid
-
15% inhibition at 0.01 mM, 58% inhibition at 0.05 mM
HgCl2
-
complete inactivation at 0.1 mM
Hydroxymercuribenzoate
-
-
-
iodoacetic acid
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-
Lactic acid
-
at 50 mM and above
Li+
-
5% activation at 1 mM, 62% inhibition at 5 mM
MnSO4
0.1 mM, 10% decrease in activity
N-bromosuccinimide
p-coumaric acid
-
33% inhibition at 0.01 mM, 61% inhibition at 0.05 mM
PCMB
-
49% loss of activity at 0.01 mM, complete inactivation at 0.1 mM
polygalacturonic acid
-
at concentrations exceeding the Km-value
Propionic acid
-
at 50 mM and above
salicylic acid
Sodium metabisulfite
-
40% inactivation at 0.1 mM, 73% inactivation at 1 mM
ZnSO4
0.1 mM, 90% decrease in activity
additional information