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Literature summary extracted from

  • Rea, D.; Hovington, R.; Rakus, J.F.; Gerlt, J.A.; Fueloep, V.; Bugg, T.D.; Roper, D.I.
    Crystal structure and functional assignment of YfaU, a metal ion dependent class II aldolase from Escherichia coli K12 (2008), Biochemistry, 47, 9955-9965.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
4.1.2.20 into the plasmid pT7 for expression in Escherichia coli B834DE3 pLacIRARE2 cells Escherichia coli
4.1.2.53
-
 Escherichia coli

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
4.1.2.20 the crystal structure of apo-YfaU is determined to 1.39 A resolution and the structure of a Mg2+-pyruvate product complex to 1.93 A resolution Escherichia coli
4.1.2.53
-
 Escherichia coli

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
4.1.2.20 0.05
-
 4-hydroxy-2-ketohexanoic acid data for Ni2+-activated YfaU Escherichia coli
4.1.2.20 0.078
-
 2-dehydro-3-deoxy-L-rhamnonic acid data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.1
-
 4-hydroxy-2-ketoheptane-1,7-dioate data for Ni2+-activated YfaU Escherichia coli
4.1.2.20 0.1
-
 4-hydroxy-2-ketopentanoic acid data for Ni2+-activated YfaU Escherichia coli
4.1.2.20 0.14
-
 2-keto-3-deoxy-L-mannonate data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.15
-
 4-hydroxy-2-ketoheptane-1,7-dioate data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.8
-
 2-keto-3-deoxy-L-lyxonate data for Mg2+-activated YfaU Escherichia coli
4.1.2.53 0.05
-
 4-hydroxy-2-oxohexanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 0.078
-
 2-dehydro-3-deoxy-L-rhamnonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.1
-
 4-hydroxy-2-oxopentanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 0.1
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 0.14
-
 2-dehydro-3-deoxy-L-mannonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.15
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.8
-
 2-dehydro-3-deoxy-L-lyxonate pH 8.0, 25°C, Mg2+-activated Escherichia coli

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
4.1.2.20 Mg2+
-
 Escherichia coli
4.1.2.20 Ni2+
-
 Escherichia coli
4.1.2.53 Mg2+ metal-dependent enzyme, Mg2+ activates Escherichia coli
4.1.2.53 Ni2+ metal-dependent enzyme, Ni2+ activates. Compared to Mg2+ the Ni2+-activated enzyme has a higher turnover, resulting in an elevated substrate specificity constant Escherichia coli

Organism

EC Number Organism UniProt Comment Textmining
4.1.2.20 Escherichia coli P23522
-
-
4.1.2.53 Escherichia coli P76469
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
4.1.2.20 using metal affinity and size exclusion chromatography Escherichia coli
4.1.2.53
-
 Escherichia coli

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4.1.2.20 2-dehydro-3-deoxy-L-rhamnonate
-
 Escherichia coli ?
-
 ?
4.1.2.20 2-keto-3-deoxy-L-lyxonate
-
 Escherichia coli ?
-
 ?
4.1.2.20 2-keto-3-deoxy-L-mannonate
-
 Escherichia coli ?
-
 ?
4.1.2.20 4-hydroxy-2-ketoheptane-1,7-dioate
-
 Escherichia coli pyruvate + succinic semialdehyde
-
 ?
4.1.2.20 4-hydroxy-2-ketohexanoic acid
-
 Escherichia coli ?
-
 ?
4.1.2.20 4-hydroxy-2-ketopentanoic acid
-
 Escherichia coli ?
-
 ?
4.1.2.53 2-dehydro-3-deoxy-L-lyxonate
-
 Escherichia coli ?
-
 ?
4.1.2.53 2-dehydro-3-deoxy-L-mannonate
-
 Escherichia coli ?
-
 ?
4.1.2.53 2-dehydro-3-deoxy-L-rhamnonate 2-dehydro-3-deoxy-L-rhamnonate i.e. 3,6-dideoxy-L-erythro-hex-2-ulosonate Escherichia coli pyruvate + (R)-lactaldehyde
-
 ?
4.1.2.53 4-hydroxy-2-oxoheptane-1,7-dioate
-
 Escherichia coli ?
-
 ?
4.1.2.53 4-hydroxy-2-oxohexanoate
-
 Escherichia coli ?
-
 ?
4.1.2.53 4-hydroxy-2-oxopentanoate
-
 Escherichia coli ?
-
 ?

Synonyms

EC Number Synonyms Comment Organism
4.1.2.20 4-hydroxy-2-ketoheptane-1,7-dioate aldolase
-
 Escherichia coli
4.1.2.20 HpcH
-
 Escherichia coli
4.1.2.20 YfaU
-
 Escherichia coli
4.1.2.53 YfaU
-
 Escherichia coli

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
4.1.2.53 25
-
 assay at Escherichia coli

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
4.1.2.20 0.3
-
 2-keto-3-deoxy-L-lyxonate data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.3
-
 2-keto-3-deoxy-L-mannonate data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.4
-
 2-dehydro-3-deoxy-L-rhamnonic acid data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 0.54
-
 4-hydroxy-2-ketoheptane-1,7-dioate data for Mg2+-activated YfaU Escherichia coli
4.1.2.20 299
-
 4-hydroxy-2-ketoheptane-1,7-dioate data for Ni2+-activated YfaU Escherichia coli
4.1.2.20 396
-
 4-hydroxy-2-ketopentanoic acid data for Ni2+-activated YfaU Escherichia coli
4.1.2.20 447
-
 4-hydroxy-2-ketohexanoic acid data for Ni2+-activated YfaU Escherichia coli
4.1.2.53 0.3
-
 2-dehydro-3-deoxy-L-rhamnonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.3
-
 2-dehydro-3-deoxy-L-lyxonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.4
-
 2-dehydro-3-deoxy-L-rhamnonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 0.54
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 299
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 396
-
 4-hydroxy-2-oxopentanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 447
-
 4-hydroxy-2-oxohexanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
4.1.2.20 8
-
 activity assay Escherichia coli
4.1.2.53 8
-
 assay at Escherichia coli

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
4.1.2.53 2.1
-
 2-dehydro-3-deoxy-L-mannonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 3.6
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 3.8
-
 2-dehydro-3-deoxy-L-lyxonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 5.1
-
 2-dehydro-3-deoxy-L-rhamnonate pH 8.0, 25°C, Mg2+-activated Escherichia coli
4.1.2.53 2700
-
 4-hydroxy-2-oxoheptane-1,7-dioate pH 8.0, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 3900
-
 4-hydroxy-2-oxopentanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli
4.1.2.53 9900
-
 4-hydroxy-2-oxohexanoate pH 8.0, 25°C, 25°C, Ni2+-activated Escherichia coli