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Literature summary extracted from

  • Sartori, A.A.; Fitz-Gibbon, S.; Yang, H.; Miller, J.H.; Jiricny, J.
    A novel uracil-DNA glycosylase with broad substrate specificity and an unusual active site (2002), EMBO J., 21, 3182-3191.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

EC Number Cloned (Comment) Organism
3.2.2.27 UDGb, DNA and amino acid sequence determination and analysis, expression of His6-tagged UDGb in Escherichia coli strain BL21(DE3) Pyrobaculum aerophilum

Protein Variants

EC Number Protein Variants Comment Organism
3.2.2.27 additional information mutagenesis of motifs A and B strongly attenuates the enzyme activity of UDGb Pyrobaculum aerophilum

Inhibitors

EC Number Inhibitors Comment Organism Structure
3.2.2.27 additional information no inhibition by UGD inhibition protein from Bacillus subtilis-peptide Pyrobaculum aerophilum

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
3.2.2.27 additional information
-
 additional information kinetics Pyrobaculum aerophilum

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
3.2.2.27 28000
-
 x * 28000, recombinant His6-tagged UDGb, SDS-PAGE Pyrobaculum aerophilum

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
3.2.2.27 5-fluorouracil-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum UDGb is active on 5-fluorouracil-G pairs 5-fluorouracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 5-hydroxymethyl-uracil-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates 5-hydroxymethyl-uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 5-hydroxymethyl-uracil-mismatched single-stranded DNA + H2O Pyrobaculum aerophilum the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates 5-hydroxymethyl-uracil + single-stranded DNA with abasic site
-
 ?
3.2.2.27 ethenocytosine-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum UDGb is active on ethenocytosine-G 3,N4-ethenocytosine + double-stranded DNA with abasic site
-
 ?
3.2.2.27 hypoxanthine-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, catalyzes the removal of uracil as well as of hypoxanthine from DNA by cleavage of e.g. hypoxanthine-thymine pairs, possessing an active site, that lacks the polar amino acid residue, see also EC 3.2.2.15, substrate specificity and active site structure, overview hypoxanthine + double-stranded DNA with abasic site
-
 ?
3.2.2.27 additional information Pyrobaculum aerophilum the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates, no activity on G-T pairs, overview ?
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum
-
 uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O Pyrobaculum aerophilum the highly preferred substrate of UDGa is uracil mispaired with guanine, followed by A-U pairs, no activity with hydroxymethyl-uracil mispaired with guanine, overview uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched single-stranded DNA + H2O Pyrobaculum aerophilum UDGs of the four UDG families catalyze the removal of uracil from DNA by flipping it out of the double helix into their binding pockets, where the glycosidic bond is hydrolyzed by a water molecule activated by an aromatic amino acid, while the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, catalyzes the removal of uracil, possessing an active site, that lacks the polar amino acid residue, see also EC 3.2.2.15, substrate specificity and active site structure, overview uracil + single-stranded DNA with abasic site
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
3.2.2.27 Pyrobaculum aerophilum Q8ZXE0 a hyperthermophilic crenarchaeon, isozyme UDGb
-
3.2.2.27 Pyrobaculum aerophilum Q8ZYS2 a hyperthermophilic crenarchaeon, UDGa
-

Purification (Commentary)

EC Number Purification (Comment) Organism
3.2.2.27 recombinant His6-tagged UDGb from Escherichia coli strain BL21(DE3) Pyrobaculum aerophilum

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.2.2.27 5-fluorouracil-mismatched double-stranded DNA + H2O UDGb is active on 5-fluorouracil-G pairs Pyrobaculum aerophilum 5-fluorouracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 5-hydroxymethyl-uracil-mismatched double-stranded DNA + H2O the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates Pyrobaculum aerophilum 5-hydroxymethyl-uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 5-hydroxymethyl-uracil-mismatched single-stranded DNA + H2O the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates Pyrobaculum aerophilum 5-hydroxymethyl-uracil + single-stranded DNA with abasic site
-
 ?
3.2.2.27 ethenocytosine-mismatched double-stranded DNA + H2O UDGb is active on ethenocytosine-G Pyrobaculum aerophilum 3,N4-ethenocytosine + double-stranded DNA with abasic site
-
 ?
3.2.2.27 hypoxanthine-mismatched double-stranded DNA + H2O the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, catalyzes the removal of uracil as well as of hypoxanthine from DNA by cleavage of e.g. hypoxanthine-thymine pairs, possessing an active site, that lacks the polar amino acid residue, see also EC 3.2.2.15, substrate specificity and active site structure, overview Pyrobaculum aerophilum hypoxanthine + double-stranded DNA with abasic site
-
 ?
3.2.2.27 additional information the preferred substrate of UDGb is hydroxymethyl-uracil mispaired with guanine, followed by G-U and A-U, UDGb is active on ethenocytosine-G and 5-fluorouracil-G pairs, and UDGb also performs processing of uracil and hydroxymethyluracil from single-stranded DNA, but highly prefers double-stranded DNA substrates, no activity on G-T pairs, overview Pyrobaculum aerophilum ?
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O
-
 Pyrobaculum aerophilum uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O the highly preferred substrate of UDGa is uracil mispaired with guanine, followed by A-U pairs, no activity with hydroxymethyl-uracil mispaired with guanine, overview Pyrobaculum aerophilum uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O UDGs of the four UDG families catalyze the removal of uracil from DNA by flipping it out of the double helix into their binding pockets, where the glycosidic bond is hydrolyzed by a water molecule activated by an aromatic amino acid, while the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, catalyzes the removal of uracil, possessing an active site, that lacks the polar amino acid residue, see also EC 3.2.2.15, substrate specificity and active site structure, overview Pyrobaculum aerophilum uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched double-stranded DNA + H2O UDGs of the four UDG families, uracil-DNA glycosylase including Pyrobaculum aerophilum UDGa, catalyze the removal of uracil from DNA by flipping it out of the double helix into their binding pockets, where the glycosidic bond is hydrolyzed by a water molecule activated by an aromatic amino acid, while the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, also catalyzes the removal of hypoxanthine from DNA possessing an active site, that lacks the polar amino acid residue, substrate specificity and active site structure, overview Pyrobaculum aerophilum uracil + double-stranded DNA with abasic site
-
 ?
3.2.2.27 uracil-mismatched single-stranded DNA + H2O UDGs of the four UDG families catalyze the removal of uracil from DNA by flipping it out of the double helix into their binding pockets, where the glycosidic bond is hydrolyzed by a water molecule activated by an aromatic amino acid, while the UDGb from Pyrobaculum aerophilum, belonging to a fifth UDG family, catalyzes the removal of uracil, possessing an active site, that lacks the polar amino acid residue, see also EC 3.2.2.15, substrate specificity and active site structure, overview Pyrobaculum aerophilum uracil + single-stranded DNA with abasic site
-
 ?

Subunits

EC Number Subunits Comment Organism
3.2.2.27 ? x * 28000, recombinant His6-tagged UDGb, SDS-PAGE Pyrobaculum aerophilum

Synonyms

EC Number Synonyms Comment Organism
3.2.2.27 More cf. EC 3.2.2.15, the UDGb from Pyrobaculum aerophilum represents a fifth UDG family Pyrobaculum aerophilum
3.2.2.27 More the UDG from Pyrobaculum aerophilum represents the fifth UDG family Pyrobaculum aerophilum
3.2.2.27 UDGa
-
 Pyrobaculum aerophilum
3.2.2.27 UdgB
-
 Pyrobaculum aerophilum

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
3.2.2.27 70
-
 assay at Pyrobaculum aerophilum