Any feedback?
Please rate this page
(literature.php)
(0/150)

BRENDA support

Literature summary extracted from

  • Zhang, Y.; Ma, Q.; Dong, M.; Zhang, X.; Chen, Y.; Gao, X.; Song, Y.
    Essential role of amino acid position 71 in substrate preference by meso-diaminopimelate dehydrogenase from Symbiobacterium thermophilum IAM14863 (2018), Enzyme Microb. Technol., 111, 57-62 .
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.4.1.16 molecular docking of substrates meso-DAP and pyruvic acid to wild-type and mutant R71A. Substrate binding with meso-DAP or pyruvic acid changes the rigidity of the enzyme and the secondary structure around R71 Symbiobacterium thermophilum

Protein Variants

EC Number Protein Variants Comment Organism
1.4.1.16 A69R mutation to the correspondung residue of Symbiobacteium thermophilum DAPDH. Mutation improves the catalytic efficiencies toward 2-keto acids and does not affect the catalytic efficiency toward meso-DAP Corynebacterium glutamicum
1.4.1.16 R71A mutation destroys the cation-pi interaction between residues R71 and Y205 Symbiobacterium thermophilum
1.4.1.16 R71E for reductive amination, the mutant shows a 1.5fold increase in Km and 0.24fold decrease in kcat. For oxidative deamination, a 50% decrease in the kcat/Km value is observed Symbiobacterium thermophilum
1.4.1.16 R71I R71I shows 0.37fold decrease in kcat/Km value for pyruvic acid Symbiobacterium thermophilum
1.4.1.16 R71K the kcat/Km values toward pyruvic acid and meso-DAP increase by 1.4fold and 1.8fold, respectively Symbiobacterium thermophilum
1.4.1.16 R71Q the kcat/Km values toward pyruvic acid and meso-DAP both decrease by 30% Symbiobacterium thermophilum
1.4.1.16 R71S for pyruvic acid, R71S shows few changes in kcat/Km values Symbiobacterium thermophilum

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.4.1.16 0.41
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.43
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.43
-
 meso-2,6-diaminoheptanedioate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.53
-
 meso-2,6-diaminoheptanedioate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.56
-
 meso-2,6-diaminoheptanedioate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.59
-
 meso-2,6-diaminoheptanedioate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.63
-
 meso-2,6-diaminoheptanedioate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 1.37
-
 meso-2,6-diaminoheptanedioate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 10.91
-
 pyruvate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 14.08
-
 pyruvate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 16.31
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 19.17
-
 pyruvate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 19.24
-
 pyruvate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 25.18
-
 pyruvate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 26.88
-
 4-methyl-2-oxopentanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 29.92
-
 oxaloacetate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 31.5
-
 oxaloacetate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 33.51
-
 4-methyl-2-oxopentanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 36.16
-
 2-oxovalerate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 57.04
-
 2-oxovalerate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 97.88
-
 3-methyl-2-oxobutanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 119.2
-
 3-methyl-2-oxobutanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 294.9
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 337.6
-
 pyruvate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum

Organism

EC Number Organism UniProt Comment Textmining
1.4.1.16 Corynebacterium glutamicum P04964
-
-
1.4.1.16 Corynebacterium glutamicum ATCC 13032 P04964
-
-
1.4.1.16 Symbiobacterium thermophilum Q67PI3
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.4.1.16 2-oxovalerate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ? + H2O + NADP+
-
 ?
1.4.1.16 2-oxovalerate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ATCC 13032 ? + H2O + NADP+
-
 ?
1.4.1.16 3-methyl-2-oxobutanoate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ? + H2O + NADP+
-
 ?
1.4.1.16 3-methyl-2-oxobutanoate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ATCC 13032 ? + H2O + NADP+
-
 ?
1.4.1.16 4-methyl-2-oxopentanoate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ? + H2O + NADP+
-
 ?
1.4.1.16 4-methyl-2-oxopentanoate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ATCC 13032 ? + H2O + NADP+
-
 ?
1.4.1.16 meso-2,6-diaminoheptanedioate + H2O + NADP+
-
 Corynebacterium glutamicum L-2-amino-6-oxoheptanedioate + NH3 + NADPH + H+
-
 ?
1.4.1.16 meso-2,6-diaminoheptanedioate + H2O + NADP+
-
 Symbiobacterium thermophilum L-2-amino-6-oxoheptanedioate + NH3 + NADPH + H+
-
 ?
1.4.1.16 meso-2,6-diaminoheptanedioate + H2O + NADP+
-
 Corynebacterium glutamicum ATCC 13032 L-2-amino-6-oxoheptanedioate + NH3 + NADPH + H+
-
 ?
1.4.1.16 oxaloacetate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ? + H2O + NADP+
-
 ?
1.4.1.16 oxaloacetate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum ATCC 13032 ? + H2O + NADP+
-
 ?
1.4.1.16 pyruvate + NH3 + NADPH + H+
-
 Corynebacterium glutamicum D-alanine + H2O + NADP+
-
 ?
1.4.1.16 pyruvate + NH3 + NADPH + H+
-
 Symbiobacterium thermophilum D-alanine + H2O + NADP+
-
 ?

Synonyms

EC Number Synonyms Comment Organism
1.4.1.16 DAPDH
-
 Corynebacterium glutamicum
1.4.1.16 DAPDH
-
 Symbiobacterium thermophilum
1.4.1.16 DDH
-
 Corynebacterium glutamicum
1.4.1.16 Sth1425
-
 Symbiobacterium thermophilum

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1.4.1.16 0.087
-
 oxaloacetate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.1
-
 4-methyl-2-oxopentanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.11
-
 oxaloacetate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.12
-
 4-methyl-2-oxopentanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.27
-
 3-methyl-2-oxobutanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.38
-
 3-methyl-2-oxobutanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.91
-
 2-oxovalerate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.93
-
 2-oxovalerate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.35
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.68
-
 pyruvate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 2.27
-
 pyruvate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 3.09
-
 pyruvate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 6.15
-
 pyruvate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 6.45
-
 pyruvate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 7
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 7.2
-
 pyruvate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 37.44
-
 meso-2,6-diaminoheptanedioate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 40.47
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 45.77
-
 meso-2,6-diaminoheptanedioate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 50.96
-
 meso-2,6-diaminoheptanedioate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 51.99
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 61.58
-
 meso-2,6-diaminoheptanedioate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 65.62
-
 meso-2,6-diaminoheptanedioate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 163.6
-
 meso-2,6-diaminoheptanedioate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
1.4.1.16 0.0028
-
 3-methyl-2-oxobutanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.0029
-
 oxaloacetate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.0034
-
 4-methyl-2-oxopentanoate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.0046
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.016
-
 2-oxovalerate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 0.07
-
 pyruvate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.16
-
 pyruvate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.32
-
 pyruvate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.43
-
 pyruvate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.51
-
 pyruvate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.59
-
 pyruvate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 0.96
-
 meso-2,6-diaminoheptanedioate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.14
-
 3-methyl-2-oxobutanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.15
-
 4-methyl-2-oxopentanoate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.24
-
 oxaloacetate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.46
-
 pyruvate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 1.57
-
 2-oxovalerate mutant A69R, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 47.83
-
 meso-2,6-diaminoheptanedioate mutant R71E, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 72.68
-
 meso-2,6-diaminoheptanedioate mutant R71Q, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 86.73
-
 meso-2,6-diaminoheptanedioate mutant R71S, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 90.84
-
 meso-2,6-diaminoheptanedioate mutant R71I, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 98.48
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum
1.4.1.16 120.3
-
 meso-2,6-diaminoheptanedioate wild-type, pH not specified in the publication, temperature not specified in the publication Corynebacterium glutamicum
1.4.1.16 279.4
-
 meso-2,6-diaminoheptanedioate mutant R71K, pH not specified in the publication, temperature not specified in the publication Symbiobacterium thermophilum