Information on EC 3.2.2.3 - uridine nucleosidase

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

EC NUMBER
COMMENTARY hide
3.2.2.3
-
RECOMMENDED NAME
GeneOntology No.
uridine nucleosidase
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
uridine + H2O = D-ribose + uracil
show the reaction diagram
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
hydrolysis of N-glycosyl bond
PATHWAY
BRENDA Link
KEGG Link
MetaCyc Link
Nicotinate and nicotinamide metabolism
-
-
Pyrimidine metabolism
-
-
pyrimidine ribonucleosides salvage II
-
-
pyrimidine ribonucleosides salvage III
-
-
SYSTEMATIC NAME
IUBMB Comments
uridine ribohydrolase
-
CAS REGISTRY NUMBER
COMMENTARY hide
9025-47-2
-
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
protozoan parasite
Uniprot
Manually annotated by BRENDA team
gene rihC
-
-
Manually annotated by BRENDA team
-
-
-
Manually annotated by BRENDA team
-
-
-
Manually annotated by BRENDA team
-
-
-
Manually annotated by BRENDA team
-
-
-
Manually annotated by BRENDA team
strain BY4742
-
-
Manually annotated by BRENDA team
-
-
-
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
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
5-fluorocytidine + H2O
D-ribose + 5-fluorocytosine
show the reaction diagram
-
-
-
?
5-fluorouridine + H2O
D-ribose + 5-fluorouracil
show the reaction diagram
-
-
-
?
5-methyluridine + H2O
5-methyluracil + D-ribose
show the reaction diagram
-
-
-
-
?
5-methyluridine + H2O
D-ribose + 5-methyluracil
show the reaction diagram
-
-
-
-
?
adenosine + H2O
D-ribose + adenine
show the reaction diagram
cytidine + H2O
cytosine + D-ribose
show the reaction diagram
-
-
-
-
?
cytidine + H2O
D-ribose + cytosine
show the reaction diagram
deoxycytidine + H2O
D-deoxyribose + cytosine
show the reaction diagram
-
-
-
?
inosine + H2O
D-ribose + hypoxanthine
show the reaction diagram
-
-
-
-
?
inosine + H2O
D-ribose + xanthine
show the reaction diagram
isopentenyladenine riboside + H2O
D-ribose + N6-isopentenyladenine
show the reaction diagram
-
-
-
-
?
nicotinamide riboside + H2O
nicotinamide + D-ribose
show the reaction diagram
nicotinic acid riboside + H2O
nicotinic acid + D-ribose
show the reaction diagram
nicotinic acid riboside methyl ester + H2O
?
show the reaction diagram
ribothymidine + H2O
D-ribose + ?
show the reaction diagram
-
-
-
-
?
uridine + H2O
D-ribose + uracil
show the reaction diagram
uridine + H2O
uracil + D-ribose
show the reaction diagram
xanthosine + H2O
D-ribose + xanthine
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
cytidine + H2O
D-ribose + cytosine
show the reaction diagram
uridine + H2O
D-ribose + uracil
show the reaction diagram
additional information
?
-
METALS and IONS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
copper
-
contains 1 copper atom per enzyme molecule
Cu2+
-
contains 1 gatom of Cu2+ per enzyme molecule
additional information
INHIBITORS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
1,10-phenanthroline
-
-
5-fluorocytidine
noncompetitive
5-fluorouridine
; competitive
CuCl2
cytidine
noncompetitive
D-ribose
deoxycytidine
competitive
glucose 6-phosphate
immucillin-H
-
-
Inosine
noncompetitive
Omeprazole
-
an enzyme and a proton-pump inhibitor
pantoprazole
-
an enzyme and a proton-pump inhibitor
PCMB
-
reversal by sulfhydryl agents
rabeprazole
-
an enzyme and a proton-pump inhibitor
ribose 5-phosphate
-
-
ribosylthymine
ribulose 5-phosphate
-
-
uridine
-
above 0.4 mM
additional information
-
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.44 - 1.66
5-methyluridine
0.06 - 0.7
adenosine
0.682
cytidine
-
pH 7.2, 32C, recombinant His-tagged enzyme
0.422 - 1.4
Inosine
0.016
nicotinamide riboside
-
in 50 mM Tris-HCl, pH 7.0
0.15
nicotinic acid riboside
-
in 50 mM Tris-HCl, pH 7.0
0.045
nicotinic acid riboside methyl ester
-
in 50 mM Tris-HCl, pH 7.0
0.421
ribothymidine
-
pH 7.2, 32C, recombinant His-tagged enzyme
0.1 - 2.1
uridine
0.109 - 1.69
Xanthosine
additional information
additional information
-
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.18 - 1.15
adenosine
1.12
cytidine
Escherichia coli
-
pH 7.2, 32C, recombinant His-tagged enzyme
0.61 - 4.31
Inosine
23.4
nicotinamide riboside
Saccharomyces cerevisiae
-
in 50 mM Tris-HCl, pH 7.0
1.8
nicotinic acid riboside
Saccharomyces cerevisiae
-
in 50 mM Tris-HCl, pH 7.0
2.3
nicotinic acid riboside methyl ester
Saccharomyces cerevisiae
-
in 50 mM Tris-HCl, pH 7.0
1.29
ribothymidine
Escherichia coli
-
pH 7.2, 32C, recombinant His-tagged enzyme
3 - 23.8
uridine
1.3 - 6.3
Xanthosine
kcat/KM VALUE [1/mMs-1]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
2.8 - 3.5
adenosine
122
16
cytidine
Escherichia coli
-
pH 7.2, 32C, recombinant His-tagged enzyme
372
0.6 - 10.2
Inosine
167
31
ribothymidine
Escherichia coli
-
pH 7.2, 32C, recombinant His-tagged enzyme
178324
6.4 - 46
uridine
261
7.5 - 42
Xanthosine
1222
Ki VALUE [mM]
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
3
5-fluorocytidine
pH 7.5, 37C, wild-type enzyme, versus uridine
0.6
5-fluorouridine
pH 7.5, 37C, wild-type enzyme, versus uridine
2
cytidine
pH 7.5, 37C, wild-type enzyme, versus uridine
3
deoxycytidine
pH 7.5, 37C, wild-type enzyme, versus uridine
3
Inosine
pH 7.5, 37C, wild-type enzyme, versus uridine
2
ribosylthymine
pH 7.5, 37C, wild-type enzyme, versus uridine
IC50 VALUE [mM]
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.0023
Omeprazole
Trichomonas vaginalis
-
pH 6.5, 22C
0.0145
pantoprazole
Trichomonas vaginalis
-
pH 6.5, 22C
0.0003
rabeprazole
Trichomonas vaginalis
-
pH 6.5, 22C
SPECIFIC ACTIVITY [µmol/min/mg]
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
303.3
-
purified recombinant enzyme, substrate uridine
additional information
-
-
pH RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
5 - 9
-
pH profile is bell-shaped with the enzyme showing significant activity over a wide pH range, 50% activity at pH 5.0 and pH 9.0
6 - 9
-
pH 6.0: about 39% of maximal activity, pH 9.0: about 10% of maximal activity
6.8 - 8
-
pH 6.8: about 70% of maximal activity, pH 8.0: about 65% of maximal activity
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
22
-
assay at room temperrature
32
-
assay at
TEMPERATURE RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
30 - 60
-
30C: about 60% of maximal activity, 60C: about 35% of maximal activity
SOURCE TISSUE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
SOURCE
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imbibed
Manually annotated by BRENDA team
-
of 10-week-old plant, enzyme activity is higher in leaf than in tuber
Manually annotated by BRENDA team
of roots and in root tips
Manually annotated by BRENDA team
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
PDB
SCOP
CATH
ORGANISM
UNIPROT
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
16500
-
2 * 16500, SDS-PAGE
17000
-
2 * 17000, SDS-PAGE
30000
-
gel filtration
32500
-
gel filtration
33642
-
2 * 36000, recombinant His-tagged enzyme, SDS-PAGE, 2 * 33642, His-tagged enzyme, sequence calculation
36000
-
2 * 36000, recombinant His-tagged enzyme, SDS-PAGE, 2 * 33642, His-tagged enzyme, sequence calculation
55000
-
gel filtration
58000
-
2 * 58000, SDS-PAGE
69000
-
recombinant His-tagged enzyme, gel filtration
117000
-
gel filtration
SUBUNITS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
homodimer
-
2 * 36000, recombinant His-tagged enzyme, SDS-PAGE, 2 * 33642, His-tagged enzyme, sequence calculation
pH STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
5 - 9
-
4C, stable. Unstable below pH 5.0
326393
TEMPERATURE STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
50
-
in absence of substrate, 15 min, stable
55
-
10 min, stable up to
58
-
10 min, 40% loss of activity
60
-
in absence of substrate, 15 min, 50% loss of activity
65
-
10 min, complete inactivation
GENERAL STABILITY
ORGANISM
UNIPROT
LITERATURE
enzyme retains about 95% of the original activity after dialysis against 0.01 M Tris-HCl buffer, pH 7.5 for 24 h
-
STORAGE STABILITY
ORGANISM
UNIPROT
LITERATURE
-20C, stable for several months
-
4C, 100 mM phosphate buffer, pH 7.2, 50 mM Tris-HCl, pH 7.0, stable for up to 15 days
-
Purification/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3)pLysS E. by nickel affinity chromatography, ultrafiltration, dialysis, and anion exchange chromatography
-
Cloned/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
construction of enzyme overexpressing strains
-
expressed in Escherichia coli
-
expression in a Saccharomyces mutant deficient in uridine-cytidine N-ribohydrolase restores the enzyme activity
functional expression of URH1 in Arabidopsis thaliana plants under control of the CaMV 35S promoter
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gene rihC, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3)pLysS E.
-
isozyme PpNRH2, phylogenetic analysis, recombinant expression in Escherichia coli in inclusion bodies
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phylogenetic analysis; phylogenetic analysis
URH1, DNA and amino acid sequence determination and analysis, expression in Escherichia coli, functional complementation of a yeast mutant, expression in transgenic Arabidopsis thaliana mutant plants under control of the CaMV 35S promoter
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ENGINEERING
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
H254A
sited-directed mutagenesis, active site mutant, 30fold decreased Vmax and unaltered Km compared to the wild-type enzyme
additional information
APPLICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
pharmacology
-
Saccharomyces cerevisiae enzyme deficient mutant strains expressing protozoan enzymes could be useful tools in drug screening for specific inhibitors against the pathogenic parasites