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Literature summary for 4.1.1.2 extracted from

  • Just, V.J.; Stevenson, C.E.M.; Bowater, L.; Tanner, A.; Lawson, D.M.; Bornemann, S.
    A closed conformation of Bacillus subtilis oxalate decarboxylase OxdC provides evidence for the true identity of the active site (2004), J. Biol. Chem., 279, 19867-19874.
    View publication on PubMed

Activating Compound

Activating Compound Comment Organism Structure
additional information induced by low pH, not by oxalate salts Bacillus subtilis

Cloned(Commentary)

Cloned (Comment) Organism
expression in Escherichia coli BL21(DE3) Bacillus subtilis

Crystallization (Commentary)

Crystallization (Comment) Organism
recombinant OxdC, hanging drop vapour diffusion method, X-ray analysis Bacillus subtilis

Protein Variants

Protein Variants Comment Organism
E162A Mn2+-binding site 1 mutant, inactive Bacillus subtilis
E162Q Mn2+-binding site 1 mutant, Vmax and kcat/Km is 1% that of wild-type Bacillus subtilis
E333A Mn2+-binding site 2 mutant, 4-6% of wild-type activity at pH 4, lower Km for oxalate, kcat/Km is 25% that of wild-type Bacillus subtilis
E333Q Mn2+-binding site 2 mutant, inactive Bacillus subtilis
R270A Mn2+-binding site 2 mutant, kcat/Km is 3% that of wild-type Bacillus subtilis
R270K Mn2+-binding site 2 mutant, kcat/Km is 43% that of wild-type Bacillus subtilis
R92A Mn2+-binding site 1 mutant, inactive Bacillus subtilis
R92K Mn2+-binding site 1 mutant, kcat/Km is 7% that of wild-type Bacillus subtilis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1
-
oxalate pH 4, 26°C, R270K mutant OxdC Bacillus subtilis
2
-
oxalate pH 4, 26°C, R92K mutant OxdC Bacillus subtilis
4
-
oxalate pH 4, 26°C, E333A mutant OxdC Bacillus subtilis
8
-
oxalate pH 4, 26°C, R270A mutant OxdC Bacillus subtilis
14
-
oxalate pH 4, 26°C, E162Q mutant OxdC Bacillus subtilis
16.4
-
oxalate pH 4, 26°C, wild-type OxdC Bacillus subtilis

Localization

Localization Comment Organism GeneOntology No. Textmining
cytoplasm
-
Bacillus subtilis 5737
-

Metals/Ions

Metals/Ions Comment Organism Structure
Mn2+ contains 2 Mn2+ per subunit, role in catalysis, mechanism, 2 Mn-binding sites, the N-terminal Mn-binding site 1 is catalytically active Bacillus subtilis

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
oxalate + H+ Bacillus subtilis involved in the elevation of cytoplasmic pH formate + CO2
-
?
oxalate + H+ Bacillus subtilis 168 involved in the elevation of cytoplasmic pH formate + CO2
-
?

Organism

Organism UniProt Comment Textmining
Bacillus subtilis O34714
-
-
Bacillus subtilis 168 O34714
-
-

Purification (Commentary)

Purification (Comment) Organism
recombinant OXDC Bacillus subtilis

Reaction

Reaction Comment Organism Reaction ID
oxalate = formate + CO2 catalytic mechanism Bacillus subtilis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
oxalate + H+ catalytic mechanism involves the requirement of an active site proton donor: Glu-162, catalytic cycle, enzyme structure, N-terminal domain is the catalytically active domain, dioxygen-dependent reaction involves no net redox change Bacillus subtilis formate + CO2
-
?
oxalate + H+ involved in the elevation of cytoplasmic pH Bacillus subtilis formate + CO2
-
?
oxalate + H+ catalytic mechanism involves the requirement of an active site proton donor: Glu-162, catalytic cycle, enzyme structure, N-terminal domain is the catalytically active domain, dioxygen-dependent reaction involves no net redox change Bacillus subtilis 168 formate + CO2
-
?
oxalate + H+ involved in the elevation of cytoplasmic pH Bacillus subtilis 168 formate + CO2
-
?

Synonyms

Synonyms Comment Organism
More enzyme belongs to the cupin superfamily, bicupin Bacillus subtilis
OXDC formerly YvrK Bacillus subtilis

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
26
-
assay at Bacillus subtilis

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
4
-
assay at Bacillus subtilis

pH Range

pH Minimum pH Maximum Comment Organism
7.5
-
not active above Bacillus subtilis

Cofactor

Cofactor Comment Organism Structure
O2 utilizes dioxygen as cofactor Bacillus subtilis