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Literature summary for 3.5.3.12 extracted from

  • Jones, J.E.; Causey, C.P.; Lovelace, L.; Knuckley, B.; Flick, H.; Lebioda, L.; Thompson, P.R.
    Characterization and inactivation of an agmatine deiminase from Helicobacter pylori (2010), Bioorg. Chem., 38, 62-73.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 3.5.3.12

Cloned(Commentary)

Cloned (Comment) Organism
expression in Escherichia coli Helicobacter pylori

Crystallization (Commentary)

Crystallization (Comment) Organism
to 2.1 A resolution. Residue D198 is the key residue for agmatine recognition Helicobacter pylori

Inhibitors

Inhibitors Comment Organism Structure
Co2+
-
 Helicobacter pylori
N-(4-aminobutyl)-2-chloro-ethanimidamide i.e. ABCA , haloacetamidine-containing agmatine analogue Helicobacter pylori
N-(4-aminobutyl)-2-fluoro-ethanimidamide i.e. ABFA, haloacetamidine-containing agmatine analogue Helicobacter pylori
Ni2+
-
 Helicobacter pylori
Zn2+
-
 Helicobacter pylori

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.033
-
 agmatine wild-type, pH 8.0, 37°C Helicobacter pylori
0.17
-
 agmatine mutant D198A, pH 8.0, 37°C Helicobacter pylori

Organism

Organism UniProt Comment Textmining
Helicobacter pylori Q9ZN18
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
Ac-SGRGK + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
agmatine + H2O
-
 Helicobacter pylori N-carbamoylputrescine + NH3 major products. Ammonia and N-carbamoylputrescine are produced in approximately equimolar amounts ?
guanidine + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
L-arginine + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
N-alpha-benzoyl-L-arginine amide + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
N-alpha-benzoyl-L-arginine ethyl ester + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
N-alpha-benzoyl-L-arginine methyl ester + H2O
-
 Helicobacter pylori ? + NH3
-
 ?
streptomycin + H2O
-
 Helicobacter pylori ? + NH3
-
 ?

Synonyms

Synonyms Comment Organism
AgD
-
 Helicobacter pylori

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.0047
-
 agmatine mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.082
-
 agmatine wild-type, pH 8.0, 37°C Helicobacter pylori

IC50 Value

IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
0.00087
-
 wild-type, pH 8.0, 37°C Helicobacter pylori N-(4-aminobutyl)-2-chloro-ethanimidamide
0.0068
-
 wild-type, pH 8.0, 37°C Helicobacter pylori N-(4-aminobutyl)-2-fluoro-ethanimidamide
0.013
-
 wild-type, pH 8.0, 37°C Helicobacter pylori Co2+
0.03
-
 wild-type, pH 8.0, 37°C Helicobacter pylori Zn2+
0.1
-
 wild-type, pH 8.0, 37°C Helicobacter pylori Ni2+

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.0000038
-
 Ac-SGRGK wild-type, pH 8.0, 37°C Helicobacter pylori
0.000017
-
 L-arginine wild-type, pH 8.0, 37°C Helicobacter pylori
0.0000235
-
 Ac-SGRGK mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.000033
-
 streptomycin mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.0000377
-
 streptomycin wild-type, pH 8.0, 37°C Helicobacter pylori
0.0000678
-
 guanidine mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.000072
-
 N-alpha-benzoyl-L-arginine amide wild-type, pH 8.0, 37°C Helicobacter pylori
0.0000812
-
 guanidine wild-type, pH 8.0, 37°C Helicobacter pylori
0.0000847
-
 N-alpha-benzoyl-L-arginine ethyl ester wild-type, pH 8.0, 37°C Helicobacter pylori
0.0001038
-
 N-alpha-benzoyl-L-arginine methyl ester wild-type, pH 8.0, 37°C Helicobacter pylori
0.0001285
-
 N-alpha-benzoyl-L-arginine amide mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.0001383
-
 N-alpha-benzoyl-L-arginine ethyl ester mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.000149
-
 L-arginine mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.0002183
-
 N-alpha-benzoyl-L-arginine methyl ester mutant D198A, pH 8.0, 37°C Helicobacter pylori
0.0283
-
 agmatine mutant D198A, pH 8.0, 37°C Helicobacter pylori
2.45
-
 agmatine wild-type, pH 8.0, 37°C Helicobacter pylori