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Literature summary extracted from

  • Fu, G.; Yuan, H.; Li, C.; Lu, C.D.; Gadda, G.; Weber, I.T.
    Conformational changes and substrate recognition in Pseudomonas aeruginosa D-arginine dehydrogenase (2010), Biochemistry, 49, 8535-8545.
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.4.99.6 in complex with iminoarginine, to 1.06 A resolution, and in complex with iminohistidine, to 1.3 A resolution. The structure comprises an unliganded conformation and a product-bound conformation. The active site is partially occupied with iminoarginine product that interacts with Tyr53 in the minor conformation of a surface loop. The guanidinium side chain of iminoarginine forms a hydrogen bond interaction with the hydroxyl of Thr50 and an ionic interaction with Glu87. In complex with iminohistidine, two alternate conformations are observed for iminohistidine where the imidazole groups form hydrogen bond interactions with the side chains of His48 and Thr50 and either Glu87 or Gln336. The different interactions and very distinct binding modes observed for iminoarginine and iminohistidine are consistent with the 1000fold difference in kcat/Km values for D-arginine and D-histidine Pseudomonas aeruginosa

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.4.99.6 0.06
-
D-arginine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 0.26
-
D-Lysine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 0.8
-
D-tyrosine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 10
-
D-methionine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 11
-
D-phenylalanine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 11
-
D-histidine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 12
-
D-leucine pH 8.7, 25°C Pseudomonas aeruginosa

Organism

EC Number Organism UniProt Comment Textmining
1.4.99.6 Pseudomonas aeruginosa Q9HXE3
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.4.99.6 D-arginine + phenazine methosulfate
-
Pseudomonas aeruginosa 5-guanidino-2-oxopentanoate + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-histidine + phenazine methosulfate
-
Pseudomonas aeruginosa 3-(1H-imidazol-4-yl)-2-oxopropanoate + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-leucine + phenazine methosulfate
-
Pseudomonas aeruginosa ? + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-lysine + phenazine methosulfate
-
Pseudomonas aeruginosa 6-amino-2-oxohexanoate + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-methionine + phenazine methosulfate
-
Pseudomonas aeruginosa 4-methylsulfanyl-2-oxobutanoate + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-phenylalanine + phenazine methosulfate
-
Pseudomonas aeruginosa 2-oxo-3-phenylpropanoate + NH3 + reduced phenazine methosulfate overall reaction ?
1.4.99.6 D-tyrosine + phenazine methosulfate
-
Pseudomonas aeruginosa 3-(4-hydroxyphenyl)-2-oxopropanoate + NH3 + reduced phenazine methosulfate overall reaction ?

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1.4.99.6 6.4
-
D-leucine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 23
-
D-tyrosine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 35
-
D-histidine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 75
-
D-phenylalanine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 141
-
D-Lysine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 154
-
D-methionine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 204
-
D-arginine pH 8.7, 25°C Pseudomonas aeruginosa

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
1.4.99.6 0.515
-
D-leucine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 3.14
-
D-histidine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 6.9
-
D-phenylalanine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 14.8
-
D-methionine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 27.6
-
D-tyrosine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 530
-
D-Lysine pH 8.7, 25°C Pseudomonas aeruginosa
1.4.99.6 3400
-
D-arginine pH 8.7, 25°C Pseudomonas aeruginosa