Mutational analysis of substrate interactions with the active site of dialkylglycine decarboxylase

Emily J. Fogle, Michael D. Toney

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

Pyridoxal phosphate (PLP)-dependent enzymes catalyze many different types of reactions at the α-, β-, and γ-carbons of amine and amino acid substrates. Dialkylglycine decarboxylase (DGD) is an unusual PLP-dependent enzyme that catalyzes two reaction types, decarboxylation and transamination, in the same active site. A structurally based, functional model has been proposed for the DGD active site, which maintains that R406 is important in determining substrate specificity through interactions with the substrate carboxylate while W138 provides specificity for short-chain alkyl groups. The mechanistic roles of R406 and W138 were investigated using site-directed mutagenesis, alternate substrates, and analysis of steady-state and half-reaction kinetics. Experiments with the R406M and R406K mutants confirm the importance of R406 in substrate binding. Surprisingly, this work also shows that the positive charge of R406 facilitates catalysis of decarboxylation. The W138F mutant demonstrates that W138 indeed acts to limit the size of the subsite C binding pocket, determining specificity for 2,2-dialkylglycines with small side chains as predicted by the model. Finally, work with the double mutant W138F/M141R shows that these mutations expand substrate specificity to include l-glutamate and lead to an increase in specificity for l-glutamate over 2-aminoisobutyrate of approximately 8 orders of magnitude compared to that of wild-type DGD.

Original languageEnglish (US)
Pages (from-to)6485-6493
Number of pages9
JournalBiochemistry
Volume49
Issue number30
DOIs
StatePublished - Aug 3 2010

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2,2-dialkylglycine decarboxylase
Catalytic Domain
Decarboxylation
Pyridoxal Phosphate
Substrate Specificity
Glutamic Acid
Substrates
Enzymes
Site-Directed Mutagenesis
Catalysis
Amines
Carbon
Amino Acids
Mutagenesis
Mutation
Reaction kinetics

ASJC Scopus subject areas

  • Biochemistry

Cite this

Mutational analysis of substrate interactions with the active site of dialkylglycine decarboxylase. / Fogle, Emily J.; Toney, Michael D.

In: Biochemistry, Vol. 49, No. 30, 03.08.2010, p. 6485-6493.

Research output: Contribution to journalArticle

Fogle, Emily J. ; Toney, Michael D. / Mutational analysis of substrate interactions with the active site of dialkylglycine decarboxylase. In: Biochemistry. 2010 ; Vol. 49, No. 30. pp. 6485-6493.
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