Literature summary extracted from

Yoshimura, T.; Goto, M.
D-amino acids in the brain: structure and function of pyridoxal phosphate-dependent amino acid racemases (2008), FEBS J., 275, 3527-3537.

Protein Variants

EC Number	Protein Variants	Comment	Organism
5.1.1.1	K39A	Lys39 is the catalytic residue required for the abstraction and addition of the alpha-hydrogen of D-alanine, As shown by site-directed mutagenesis (K39A mutant) and chemical rescue studies. Tyr265 is catalytic residue for L-alanine, shown by site-directed mutagenesis (Y265A mutant)	Geobacillus stearothermophilus
5.1.1.1	Y265A	Lys39 is the catalytic residue required for the abstraction and addition of the alpha-hydrogen of D-alanine, As shown by site-directed mutagenesis (K39A mutant) and chemical rescue studies. Tyr265 is catalytic residue for L-alanine, shown by site-directed mutagenesis (Y265A mutant)	Geobacillus stearothermophilus

Natural Substrates/ Products (Substrates)

EC Number	Natural Substrates	Organism	Comment (Nat. Sub.)	Natural Products	Comment (Nat. Pro.)	Rev.	Reac.
5.1.1.1	L-alanine	Salmonella enterica subsp. enterica serovar Typhimurium	-	D-alanine	-	?
5.1.1.1	L-alanine	Bacillus subtilis	-	D-alanine	-	?
5.1.1.1	L-alanine	Escherichia coli	-	D-alanine	-	?
5.1.1.1	L-alanine	Geobacillus stearothermophilus	-	D-alanine	-	?
5.1.1.1	L-alanine	Bipolaris zeicola	-	D-alanine	responsible for the synthesis of the d-alanine moiety present in cyclosporin A and of HC-toxin	?
5.1.1.1	L-alanine	Tolypocladium inflatum	responsible for the synthesis of the d-alanine moiety present in cyclosporin A and of HC-toxin	D-alanine	-	?

Organism

EC Number	Organism	UniProt	Comment	Textmining
5.1.1.1	Bacillus subtilis	-	-	-
5.1.1.1	Bipolaris zeicola	-	-	-
5.1.1.1	Escherichia coli	-	-	-
5.1.1.1	Geobacillus stearothermophilus	P10724	-	-
5.1.1.1	Salmonella enterica subsp. enterica serovar Typhimurium	-	-	-
5.1.1.1	Tolypocladium inflatum	-	-	-

Substrates and Products (Substrate)

EC Number	Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
5.1.1.1	L-alanine	-	Salmonella enterica subsp. enterica serovar Typhimurium	D-alanine	-	?
5.1.1.1	L-alanine	-	Bacillus subtilis	D-alanine	-	?
5.1.1.1	L-alanine	-	Escherichia coli	D-alanine	-	?
5.1.1.1	L-alanine	-	Geobacillus stearothermophilus	D-alanine	-	?
5.1.1.1	L-alanine	-	Bipolaris zeicola	D-alanine	responsible for the synthesis of the d-alanine moiety present in cyclosporin A and of HC-toxin	?
5.1.1.1	L-alanine	responsible for the synthesis of the d-alanine moiety present in cyclosporin A and of HC-toxin	Tolypocladium inflatum	D-alanine	-	?

Synonyms

EC Number	Synonyms	Comment	Organism
5.1.1.1	ALR	-	Geobacillus stearothermophilus
5.1.1.1	DadB	-	Salmonella enterica subsp. enterica serovar Typhimurium
5.1.1.1	DadB	-	Bacillus subtilis
5.1.1.1	DadB	-	Escherichia coli

Cofactor

EC Number	Cofactor	Comment	Organism	Structure
5.1.1.1	pyridoxal 5'-phosphate	-	Tolypocladium inflatum
5.1.1.1	pyridoxal 5'-phosphate	-	Bipolaris zeicola
5.1.1.1	pyridoxal 5'-phosphate	once per 1 million turnovers of racemization a H-atom is added to C4-atom of the substrate moiety of the anionic intermediate instead of the reprotonation of the abstracted hydrogen at C(alpha) resulting in pyridoxamine 5'-phosphate	Geobacillus stearothermophilus
5.1.1.1	pyridoxal 5'-phosphate	stabilizes anionic intermediate after abstraction of alpha-hydrogen of the substrate amino acid by forming a quinoid intermediate	Salmonella enterica subsp. enterica serovar Typhimurium
5.1.1.1	pyridoxal 5'-phosphate	stabilizes anionic intermediate after abstraction of alpha-hydrogen of the substrate amino acid by forming a quinoid intermediate	Bacillus subtilis
5.1.1.1	pyridoxal 5'-phosphate	stabilizes anionic intermediate after abstraction of alpha-hydrogen of the substrate amino acid by forming a quinoid intermediate	Escherichia coli

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Release 2023.1 (January 2023)