Table 5.

Respiratory design of a facultative anaerobic P. putida KT2440. Genes related to pyrimidine and amino acid biosynthesis

InterPro Entry	PFAM	Name	Abbreviation	Function	Source
IPR002751	PF01891	Cobalt uptake substrate-specific transmembrane region	Vitamin B12 ^a	VitB12 Biosynthesis	PDC
IPR006538	PF06213	Cobalamin biosynthesis protein CobT	Vitamin B12 ^a	VitB12 Biosynthesis	PDC
	PF09489	Probable cobalt transporter subunit (CbtB)	Vitamin B12 ^a	VitB12 Biosynthesis	PDC
	PF10531	SLBB domain	Vitamin B12 ^a	Vit B12 uptake	PDC
		adenosylcobalamin	Vitamin B12 ^a	VitB12 Biosynthesis	GSM
	PF02621	Menaquinone biosynthesis	Vitamin K2 ^a	VitK2 biosynthesis	PDC
		Pyridoxal-5-phosphate	Vitamin B6 ^a	Pyridoxal-5-phosphate biosynthesis	GSM
		Dihydroorotate dehydrogenase	PyrK-PyrD B	Pyrimidine production	GSM, [23]
		Ribonucleotide triphosphate reductase type II	NrdD-NrdG	Pyrimidine production	GSM, [23]
PA0527	PF00027	transcriptional regulator	DNR	Transcriptional regulators	Steen et al. 2012
PA0527	PF13545				Steen et al. 2012

T Trancriptomics, PDC Protein Domain Comparisons, GSM Genome Scale Modelling; ^acan be added as vitamin to medium [30, 31];