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Literature summary extracted from

  • Blair, D.E.; Schuttelkopf, A.W.; MacRae, J.I.; van Aalten, D.M.F.
    Structure and metal-dependent mechanism of peptidoglycan deacetylase, a streptococcal virulence factor (2005), Proc. Natl. Acad. Sci. USA, 102, 15429-15434.
    View publication on PubMedView publication on EuropePMC

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
3.5.1.104 sitting-drop vapor diffusion method, native crystal structure and product complexes of SpPgdA Streptococcus pneumoniae

Protein Variants

EC Number Protein Variants Comment Organism
3.5.1.104 I419G kcat/Km is 15fold lower than wild-type value Streptococcus pneumoniae
3.5.1.104 K304I kcat/Km is 1.7fold higher than wild-type value Streptococcus pneumoniae
3.5.1.104 L302A kcat/Km is 2.5fold higher than wild-type value Streptococcus pneumoniae

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
3.5.1.104 3.8
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc wild-type enzyme Streptococcus pneumoniae
3.5.1.104 4
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme L302A Streptococcus pneumoniae
3.5.1.104 6.2
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme K304I Streptococcus pneumoniae
3.5.1.104 26
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme I419G Streptococcus pneumoniae

Localization

EC Number Localization Comment Organism GeneOntology No. Textmining

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
3.5.1.104 Co2+ 0.05 mM, 30fold increase in activity Streptococcus pneumoniae
3.5.1.104 additional information SpPgdA is a metalloenzyme using a His-His-Asp zinc-binding triad with a nearby aspartic acid and histidine acting as the catalytic base and acid, respectively Streptococcus pneumoniae
3.5.1.104 Zn2+ 0.05 mM, 5.5fold increase in activity Streptococcus pneumoniae

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
3.5.1.104 acetylated peptidoglycan + H2O Streptococcus pneumoniae peptidoglycan GlcNAc deacetylase protects the Gram-positive bacterial cell wall from host lysozymes by deacetylating peptidoglycan GlcNAc residues deacetylated peptidoglycan + acetate
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
3.5.1.104 Streptococcus pneumoniae Q8DP63
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.5.1.104 acetylated peptidoglycan + H2O
-
 Streptococcus pneumoniae deacetylated peptidoglycan + acetate
-
 ?
3.5.1.104 acetylated peptidoglycan + H2O peptidoglycan GlcNAc deacetylase protects the Gram-positive bacterial cell wall from host lysozymes by deacetylating peptidoglycan GlcNAc residues Streptococcus pneumoniae deacetylated peptidoglycan + acetate
-
 ?
3.5.1.104 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc + H2O
-
 Streptococcus pneumoniae GlcNAc-beta-1,4-GlcN-beta-1,4-GlcNAc + acetate
-
 ?

Synonyms

EC Number Synonyms Comment Organism
3.5.1.104 peptidoglycan GlcNAc deacetylase
-
 Streptococcus pneumoniae
3.5.1.104 SpPgdA
-
 Streptococcus pneumoniae

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
3.5.1.104 0.27
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme I419G Streptococcus pneumoniae
3.5.1.104 0.55
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc wild-type enzyme Streptococcus pneumoniae
3.5.1.104 1.5
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme L302A Streptococcus pneumoniae
3.5.1.104 1.6
-
 GlcNAc-beta-1,4-GlcNAc-beta-1,4-GlcNAc mutant enzyme K304I Streptococcus pneumoniae