A standard numbering scheme for thiamine diphosphate-dependent decarboxylases

BMC Biochemistry

Table 1 The set of 16 representative proteins used for establishing a standard numbering scheme

Protein	Organism	PDB-identifier
pyruvate decarboxylase	S. cerevisiae	2VK8
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cycloheaxdiene-1-carboxylate synthase	E. coli	2JLC
pyruvate decarboxylase	Z. mobilis	1ZPD
branched-chain keto acid decarboxylase	L. lactis	2VBF
benzoylformate decarboxylase	P. putida	1BFD
carboxyethylarginine synthase	S. clavuligerus	2IHT
cyclohexene-1,2-dione hydrolase	Azoarcus sp.	2PGN
oxalyl-CoA decarboxylase	O. formigenes	2C31
pyruvate oxidase	A. viridans	1V5F
pyruvate dehydrogenase	E. coli	3EYA
indolepyruvate decarboxylase	E. cloacae	1OVM
acetohydroxyacid synthase	S. cerevisiae	1JSC
acetohydroxyacid synthase	A. thaliana	1YBH
acetohydroxyacid synthase	K. pneumoniae	1OZF
benzaldehyde lyase	P. fluorescens	2AG0
glyoxylate carboligase	E. coli	2PAN

Of each PDB entry, chain A was used for alignment. It was verified that for all proteins chain A corresponds to the catalytic subunit.

ISSN: 1471-2091