TABLE 2.

Silicibacter sp. strain TM1040 genes and encoded proteins required for the regulation and synthesis of TDA

Function and gene no.	GenBank accession no.	Gene	Function	Best hit ortholog/E score
Ring precursors, oxidation, and expansion
TM1040_3728	CP000376	paaK	Phenylacetate oxidoreductase	Roseobacter sp. strain MED193 phenylacetic acid degradation oxidoreductase PaaK/8e-161
TM1040_3726	CP000376	paaI	Phenylacetate oxygenase	Roseobacter sp. strain MED193 phenylacetic acid degradation protein PaaI/4e-110
TM1040_3727	CP000376	paaJ	Phenylacetate oxygenase	Roseobacter sp. strain MED193 phenylacetic acid degradation protein PaaJ/2e-69
EF139203	EF139203	tdaD	4-Hydroxybenzoyl-CoA thioesterase	Paracoccus denitrificans PD1222 conserved hypothetical protein/2e-45
EF139204	EF139204	tdaE	ACAD	Paracoccus denitrificans PD1222 ACAD/9e-120
EF139201	EF139201	tdaB	β-Etherase, GST	Paracoccus denitrificans PD1222 putative β-etherase (β-aryl ether cleaving enzyme) protein/6e-56
EF130202	EF130202	tdaC	Prephenate dehydratase	Paracoccus denitrificans PD1222 hypothetical protein/2e-45
Sulfur metabolism and addition
TM1040_2581	CP000377	malY	β-C-S lyase (cystathionase); amino transferase	Roseobacter sp. strain MED193 aminotransferase, classes I and II/0.0
TM1040_0961	CP000377	tdaH	Sulfite oxidase domain protein	Sulfitobacter sp. strain NAS-14.1 hypothetical protein/7e-34
TM1040_1758	CP000377	cysI	Sulfite reductase	Roseobacter sp. strain MED193 sulfite reductase/0.0
CoA metabolism
EF139205	EF139205	tdaF	Phosphopantothenoylcysteine decarboxylase	Paracoccus denitrificans PD1222 flavoprotein/2e-55
Regulatory mechanism
EF139200	EF139200	tdaA	LysR substrate-binding domain protein	Paracoccus denitrificans PD1222 regulatory protein, LysR:LysR, substrate binding/1e-29