BRENDA - Enzyme Database
show all sequences of 3.2.2.8

Pyrimidine-specific ribonucleoside hydrolase from the archaeon Sulfolobus solfataricus - biochemical characterization and homology modeling

Porcelli, M.; Concilio, L.; Peluso, I.; Marabotti, A.; Facchiano, A.; Cacciapuoti, G.; FEBS J. 275, 1900-1914 (2008)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
cloned and expressed in Escherichia coli
Saccharolobus solfataricus
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.31
-
uridine
pH 7.4, 80C
Saccharolobus solfataricus
0.97
-
cytidine
pH 7.4, 80C
Saccharolobus solfataricus
Metals/Ions
Metals/Ions
Commentary
Organism
Structure
Ca2+
required in maintaining the active site structure
Saccharolobus solfataricus
Molecular Weight [Da]
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
33000
-
4 * 33000, SDS-PAGE
Saccharolobus solfataricus
35210
-
4 * 35210, calculated from sequence
Saccharolobus solfataricus
140000
-
gel filtration
Saccharolobus solfataricus
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Saccharolobus solfataricus
Q97ZS5
-
-
Purification (Commentary)
Commentary
Organism
recombinant enzyme
Saccharolobus solfataricus
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
cytidine + H2O
-
679803
Saccharolobus solfataricus
cytosine + D-ribose
-
-
-
?
inosine + H2O
catalytic efficiency towards inosine is at least 100-fold below that for uridine
679803
Saccharolobus solfataricus
?
-
-
-
?
uridine + H2O
-
679803
Saccharolobus solfataricus
uracil + D-ribose
-
-
-
?
Subunits
Subunits
Commentary
Organism
tetramer
4 * 33000, SDS-PAGE; 4 * 35210, calculated from sequence
Saccharolobus solfataricus
Temperature Optimum [C]
Temperature Optimum [C]
Temperature Optimum Maximum [C]
Commentary
Organism
100
-
-
Saccharolobus solfataricus
Temperature Range [C]
Temperature Minimum [C]
Temperature Maximum [C]
Commentary
Organism
60
110
60C: about 50% of maximal activity, 110C: about 60% of maximal activity
Saccharolobus solfataricus
Temperature Stability [C]
Temperature Stability Minimum [C]
Temperature Stability Maximum [C]
Commentary
Organism
90
-
1 h, stable
Saccharolobus solfataricus
100
-
half-life: 37 min
Saccharolobus solfataricus
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
7.1
-
uridine
pH 7.4, 80C
Saccharolobus solfataricus
39.4
-
cytidine
pH 7.4, 80C
Saccharolobus solfataricus
pI Value
Organism
Commentary
pI Value Maximum
pI Value
Saccharolobus solfataricus
calculated from sequence
-
5.2
Cloned(Commentary) (protein specific)
Commentary
Organism
cloned and expressed in Escherichia coli
Saccharolobus solfataricus
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.31
-
uridine
pH 7.4, 80C
Saccharolobus solfataricus
0.97
-
cytidine
pH 7.4, 80C
Saccharolobus solfataricus
Metals/Ions (protein specific)
Metals/Ions
Commentary
Organism
Structure
Ca2+
required in maintaining the active site structure
Saccharolobus solfataricus
Molecular Weight [Da] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
33000
-
4 * 33000, SDS-PAGE
Saccharolobus solfataricus
35210
-
4 * 35210, calculated from sequence
Saccharolobus solfataricus
140000
-
gel filtration
Saccharolobus solfataricus
Purification (Commentary) (protein specific)
Commentary
Organism
recombinant enzyme
Saccharolobus solfataricus
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
cytidine + H2O
-
679803
Saccharolobus solfataricus
cytosine + D-ribose
-
-
-
?
inosine + H2O
catalytic efficiency towards inosine is at least 100-fold below that for uridine
679803
Saccharolobus solfataricus
?
-
-
-
?
uridine + H2O
-
679803
Saccharolobus solfataricus
uracil + D-ribose
-
-
-
?
Subunits (protein specific)
Subunits
Commentary
Organism
tetramer
4 * 33000, SDS-PAGE; 4 * 35210, calculated from sequence
Saccharolobus solfataricus
Temperature Optimum [C] (protein specific)
Temperature Optimum [C]
Temperature Optimum Maximum [C]
Commentary
Organism
100
-
-
Saccharolobus solfataricus
Temperature Range [C] (protein specific)
Temperature Minimum [C]
Temperature Maximum [C]
Commentary
Organism
60
110
60C: about 50% of maximal activity, 110C: about 60% of maximal activity
Saccharolobus solfataricus
Temperature Stability [C] (protein specific)
Temperature Stability Minimum [C]
Temperature Stability Maximum [C]
Commentary
Organism
90
-
1 h, stable
Saccharolobus solfataricus
100
-
half-life: 37 min
Saccharolobus solfataricus
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
7.1
-
uridine
pH 7.4, 80C
Saccharolobus solfataricus
39.4
-
cytidine
pH 7.4, 80C
Saccharolobus solfataricus
pI Value (protein specific)
Organism
Commentary
pI Value Maximum
pI Value
Saccharolobus solfataricus
calculated from sequence
-
5.2
Other publictions for EC 3.2.2.8
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Temperature Optimum [C]
Temperature Range [C]
Temperature Stability [C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [C] (protein specific)
Temperature Range [C] (protein specific)
Temperature Stability [C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
751203
Lenz
Structural explanation for th ...
Escherichia coli
J. Comput. Aided Mol. Des.
32
1375-1388
2018
-
-
1
1
1
-
-
-
-
-
-
-
-
3
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
1
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
751391
Fan
QM/MM and MM MD Simulations o ...
Escherichia coli
J. Phys. Chem. B
122
1121-1131
2018
-
-
-
1
-
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
752168
Dalberto
-
Thermodynamics, functional an ...
Leishmania braziliensis
RSC Adv.
7
48861-48875
2017
-
-
1
1
-
-
-
5
-
-
1
-
-
1
-
-
-
-
-
-
-
-
6
1
-
-
-
5
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
5
-
-
1
-
-
-
-
-
-
-
-
-
6
1
-
-
-
5
-
-
-
-
-
-
-
-
5
5
724342
Minici
New determinants in the cataly ...
Saccharolobus solfataricus, Saccharolobus solfataricus P2
Biochemistry
51
4590-4599
2012
-
-
1
1
-
-
-
-
-
1
-
-
-
2
-
-
1
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
-
-
1
-
-
-
-
-
1
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
726441
Porcelli
Thermal unfolding of nucleosid ...
Saccharolobus solfataricus
Protein Pept. Lett.
19
369-374
2012
-
-
-
-
-
-
-
-
-
-
-
-
1
3
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
716542
Jung
Arabidopsis nucleoside hydrola ...
Arabidopsis thaliana
Plant J.
65
703-711
2011
-
-
-
-
-
-
-
5
1
-
-
-
-
3
-
-
-
-
-
-
-
-
6
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
5
1
-
-
-
-
-
-
-
-
-
-
-
6
-
-
-
-
-
-
-
-
-
-
2
2
-
-
-
707897
Garau
Active site plasticity reveale ...
Escherichia coli
BMC Struct. Biol.
10
14
2010
-
-
-
1
-
-
1
-
-
1
-
1
-
4
-
-
-
-
-
-
-
-
2
-
1
-
-
-
1
-
-
-
1
-
-
-
-
-
-
1
-
-
-
1
1
-
-
1
-
1
-
-
-
-
-
-
-
-
2
-
1
-
-
-
1
-
-
-
-
1
1
-
-
-
700741
Jung
Uridine-ribohydrolase is a key ...
Arabidopsis thaliana
Plant Cell
21
876-891
2009
-
-
1
-
1
-
-
6
-
-
-
-
-
11
-
-
1
-
-
6
1
-
8
-
-
-
-
-
-
-
-
-
-
-
-
-
-
2
-
-
1
-
-
-
-
7
-
-
-
-
-
-
-
1
-
9
1
-
8
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
679803
Porcelli
Pyrimidine-specific ribonucleo ...
Saccharolobus solfataricus
FEBS J.
275
1900-1914
2008
-
-
1
-
-
-
-
2
-
1
3
-
-
6
-
-
1
-
-
-
-
-
3
1
1
1
2
2
-
-
-
-
-
1
-
-
-
1
-
-
-
-
-
-
-
2
-
1
3
-
-
-
-
1
-
-
-
-
3
1
1
1
2
2
-
-
-
1
-
-
-
-
-
-
696258
Iovane
Structural basis for substrate ...
Escherichia coli
Biochemistry
47
4418-4426
2008
-
-
1
1
10
-
-
18
-
1
-
-
-
2
-
-
1
-
-
-
-
-
2
-
-
-
-
18
-
-
-
-
-
-
-
-
-
1
-
1
10
-
-
-
-
18
-
1
-
-
-
-
-
1
-
-
-
-
2
-
-
-
-
18
-
-
-
-
-
-
-
-
-
-
664140
Muzzolini
New insight in to the mechanis ...
Escherichia coli K-12
Biochemistry
45
773-782
2006
-
-
1
1
-
-
-
6
-
-
-
3
-
1
-
-
1
1
-
-
-
-
9
1
1
-
-
6
1
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
6
-
-
-
3
-
-
-
1
-
-
-
-
9
1
1
-
-
6
1
-
-
-
-
-
-
-
-
-
670166
Kim
Genes encoding ribonucleoside ...
Corynebacterium ammoniagenes
Microbiology
152
1169-1177
2006
-
-
1
-
-
-
-
-
-
-
-
-
-
3
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
654131
Giabbai
Cloning, purification, crystal ...
Escherichia coli
Acta Crystallogr. Sect. D
D60
524-527
2004
-
-
1
1
-
-
-
-
-
-
2
-
-
3
-
-
1
-
-
-
-
-
1
1
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
-
-
-
2
-
-
-
-
1
-
-
-
-
1
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
657373
Giabbai
Crystal structure to 1.7 ANG o ...
Escherichia coli
Structure
12
739-749
2004
-
-
1
1
2
-
-
8
2
-
3
-
-
4
-
-
1
1
-
-
-
-
7
1
-
-
-
8
-
-
-
-
-
-
-
-
-
1
-
1
2
-
-
-
-
8
2
-
3
-
-
-
-
1
-
-
-
-
7
1
-
-
-
8
-
-
-
-
-
-
-
-
-
-
663495
Giabbai
Cloning, purification, crystal ...
Escherichia coli K-12
Acta Crystallogr. Sect. D
60
524-527
2004
-
-
1
1
-
-
-
-
-
-
2
-
-
3
-
-
1
-
-
-
-
-
4
2
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
-
-
-
2
-
-
-
-
1
-
-
-
-
4
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
137114
Allam
-
Nature of enzymes that catalyz ...
Penicillium chrysogenum
Biochem. Syst. Ecol.
15
515-517
1987
-
-
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
-
-
-
5
-
1
-
1
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
5
-
1
-
1
-
1
-
-
-
-
-
-
-
-
-
137115
Krenitsky
-
Purine salvage enzymes in man ...
Leishmania donovani
Adv. Exp. Med. Biol.
122
51-56
1980
-
-
-
-
-
-
-
-
-
-
-
1
-
1
-
-
-
-
-
1
-
-
7
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
1
-
-
7
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
137116
Koszalka
Nucleosidases from Leishmania ...
Leishmania donovani
J. Biol. Chem.
254
8185-8193
1979
-
-
-
-
-
-
7
6
-
-
1
1
-
1
-
-
1
-
-
1
1
1
10
-
-
-
1
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
7
-
6
-
-
1
1
-
-
-
1
-
1
1
1
10
-
-
-
1
-
1
-
-
-
-
-
-
-
-
-
4168
Murray
-
Molecular weight estimations o ...
Pisum sativum
Phytochemistry
10
2645-2648
1971
-
-
-
-
-
-
-
-
-
-
1
1
-
1
-
-
-
-
-
1
-
-
3
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
1
-
-
-
-
-
1
-
-
3
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
137117
Terada
Purification and properties of ...
Pseudomonas fluorescens
J. Biol. Chem.
242
5578-5585
1967
-
-
-
-
-
-
16
9
-
-
-
1
-
2
-
-
1
-
-
-
1
2
16
-
-
-
3
-
5
-
-
-
-
-
-
-
-
-
-
-
-
-
-
16
-
9
-
-
-
1
-
-
-
1
-
-
1
2
16
-
-
-
3
-
5
-
-
-
-
-
-
-
-
-