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Literature summary extracted from

  • Jones, J.E.; Dreyton, C.J.; Flick, H.; Causey, C.P.; Thompson, P.R.
    Mechanistic studies of agmatine deiminase from multiple bacterial species (2010), Biochemistry, 49, 9413-9423.
    View publication on PubMedView publication on EuropePMC

Inhibitors

EC Number Inhibitors Comment Organism Structure
3.5.3.12 2-chloroacetamidine
-
 Helicobacter pylori
3.5.3.12 2-chloroacetamidine
-
 Porphyromonas gingivalis
3.5.3.12 2-chloroacetamidine
-
 Streptococcus mutans
3.5.3.12 iodoacetamide
-
 Helicobacter pylori
3.5.3.12 iodoacetamide
-
 Porphyromonas gingivalis
3.5.3.12 iodoacetamide
-
 Streptococcus mutans
3.5.3.12 N-(4-aminobutyl)-2-chloroethanimidamide
-
 Helicobacter pylori
3.5.3.12 N-(4-aminobutyl)-2-chloroethanimidamide
-
 Porphyromonas gingivalis
3.5.3.12 N-(4-aminobutyl)-2-chloroethanimidamide
-
 Streptococcus mutans
3.5.3.12 N-(4-aminobutyl)-2-fluoroethanimidamide inactivation proceeds via a multistep mechanism that requires general acid catalysis Helicobacter pylori
3.5.3.12 N-(4-aminobutyl)-2-fluoroethanimidamide inactivation proceeds via a multistep mechanism that requires general acid catalysis Porphyromonas gingivalis
3.5.3.12 N-(4-aminobutyl)-2-fluoroethanimidamide inactivation proceeds via a multistep mechanism that requires general acid catalysis Streptococcus mutans

Organism

EC Number Organism UniProt Comment Textmining
3.5.3.12 Helicobacter pylori
-
-
-
3.5.3.12 Porphyromonas gingivalis
-
-
-
3.5.3.12 Streptococcus mutans
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
3.5.3.12 the protein is recombinantly expressed, lysed by sonication, and then purified by a combination of anion exchange, heparin affinity, and gel filtration Helicobacter pylori
3.5.3.12 the protein is recombinantly expressed, lysed by sonication, and then purified by a combination of anion exchange, heparin affinity, and gel filtration Porphyromonas gingivalis
3.5.3.12 the protein is recombinantly expressed, lysed by sonication, and then purified by a combination of anion exchange, heparin affinity, and gel filtration Streptococcus mutans

Reaction

EC Number Reaction Comment Organism Reaction ID
3.5.3.12 agmatine + H2O = N-carbamoylputrescine + NH3 like other GME hydrolases the enzyme possesses a high pKa active site Cys, suggesting that the enzyme employs a reverse protonation mechanism Helicobacter pylori
a
3.5.3.12 agmatine + H2O = N-carbamoylputrescine + NH3 like other GME hydrolases the enzyme possesses a high pKa active site Cys, suggesting that the enzyme employs a reverse protonation mechanism Porphyromonas gingivalis
a
3.5.3.12 agmatine + H2O = N-carbamoylputrescine + NH3 like other GME hydrolases the enzyme possesses a high pKa active site Cys, suggesting that the enzyme employs a reverse protonation mechanism Streptococcus mutans
a

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.5.3.12 agmatine + H2O
-
 Helicobacter pylori N-carbamoylputrescine + NH3
-
 ?
3.5.3.12 agmatine + H2O
-
 Porphyromonas gingivalis N-carbamoylputrescine + NH3
-
 ?
3.5.3.12 agmatine + H2O
-
 Streptococcus mutans N-carbamoylputrescine + NH3
-
 ?

Synonyms

EC Number Synonyms Comment Organism
3.5.3.12 agmatine deiminase
-
 Porphyromonas gingivalis
3.5.3.12 agmatine deiminase
-
 Streptococcus mutans
3.5.3.12 agmatine deiminaseHpAgD
-
 Helicobacter pylori
3.5.3.12 PgAgD
-
 Porphyromonas gingivalis
3.5.3.12 SmAgD
-
 Streptococcus mutans

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
3.5.3.12 37
-
 assay at Helicobacter pylori
3.5.3.12 37
-
 assay at Porphyromonas gingivalis
3.5.3.12 37
-
 assay at Streptococcus mutans

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
3.5.3.12 8
-
 assay at Helicobacter pylori
3.5.3.12 8
-
 assay at Porphyromonas gingivalis
3.5.3.12 8
-
 assay at Streptococcus mutans

IC50 Value

EC Number IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
3.5.3.12 0.00026
-
 pH 8.0, 37°C Streptococcus mutans N-(4-aminobutyl)-2-chloroethanimidamide
3.5.3.12 0.00027
-
 pH 8.0, 37°C Streptococcus mutans N-(4-aminobutyl)-2-fluoroethanimidamide
3.5.3.12 0.00087
-
 pH 8.0, 37°C Helicobacter pylori N-(4-aminobutyl)-2-chloroethanimidamide
3.5.3.12 0.0068
-
 pH 8.0, 37°C Helicobacter pylori N-(4-aminobutyl)-2-fluoroethanimidamide
3.5.3.12 0.015
-
 pH 8.0, 37°C Porphyromonas gingivalis N-(4-aminobutyl)-2-chloroethanimidamide
3.5.3.12 0.091
-
 pH 8.0, 37°C Porphyromonas gingivalis N-(4-aminobutyl)-2-fluoroethanimidamide