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Literature summary for 3.1.4.46 extracted from

  • Shi, L.; Liu, J.F.; An, X.M.; Liang, D.C.
    Crystal structure of glycerophosphodiester phosphodiesterase (GDPD) from Thermoanaerobacter tengcongensis, a metal ion-dependent enzyme: insight into the catalytic mechanism (2008), Proteins, 72, 280-288.
    View publication on PubMed

Cloned(Commentary)

Cloned (Comment) Organism
expressed in Escherichia coli Caldanaerobacter subterraneus subsp. tengcongensis

Crystallization (Commentary)

Crystallization (Comment) Organism
crystal structure of the Thermoanaerobacter tengcongensis (ttGDPD) at 1.91 A resolution is reported, with a calcium ion and glycerol as a substrate mimic coordinated at this calcium ion (PDB entry 2pz0). The ttGDPD dimer with an intermolecular disulfide bridge and two hydrogen bonds is considered as the potential functional unit Caldanaerobacter subterraneus subsp. tengcongensis

Protein Variants

Protein Variants Comment Organism
D46A mutant shows no activity Caldanaerobacter subterraneus subsp. tengcongensis
E119A mutant shows no activity Caldanaerobacter subterraneus subsp. tengcongensis
E44A mutant shows no activity Caldanaerobacter subterraneus subsp. tengcongensis
H59A relative activity: 1.39% Caldanaerobacter subterraneus subsp. tengcongensis
K121A relative activity: 4.7% Caldanaerobacter subterraneus subsp. tengcongensis
R18A relative activity: 10.7% Caldanaerobacter subterraneus subsp. tengcongensis

Metals/Ions

Metals/Ions Comment Organism Structure
Ca2+ 10 mM CaCl2, relative activity: 28.5% Caldanaerobacter subterraneus subsp. tengcongensis
Mg2+ 10 mM MgCl2, relative activity: 100% Caldanaerobacter subterraneus subsp. tengcongensis
additional information enzyme requires a divalent metal cation Caldanaerobacter subterraneus subsp. tengcongensis

Organism

Organism UniProt Comment Textmining
Caldanaerobacter subterraneus subsp. tengcongensis Q8RB32
-
-

Purification (Commentary)

Purification (Comment) Organism
using Ni-NTA chromatography and gel filtration Caldanaerobacter subterraneus subsp. tengcongensis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
glycerophosphorylcholine + H2O
-
Caldanaerobacter subterraneus subsp. tengcongensis sn-glycerol 3-phosphate + choline
-
?

Subunits

Subunits Comment Organism
homodimer crystal structure Caldanaerobacter subterraneus subsp. tengcongensis

Synonyms

Synonyms Comment Organism
glycerophosphodiester phosphodiesterase
-
Caldanaerobacter subterraneus subsp. tengcongensis
ttGDPD
-
Caldanaerobacter subterraneus subsp. tengcongensis

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
25
-
assay at Caldanaerobacter subterraneus subsp. tengcongensis

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
9
-
assay at Caldanaerobacter subterraneus subsp. tengcongensis