Table 3.

Respiratory design of a facultative anaerobic P. putida KT2440. Genes encoding for hydrogenases

InterPro Entry	PFAM	Name	Abbreviation	Function	Source
IPR027394	PF14720	NiFe/NiFeSe hydrogenase		Reversible oxidation of molecular hydrogen	PDC
	PF09459	Ethylbenzene dehydrogenase		Anaerobic degradation of hydrocarbons	PDC
IPR001501	PF00374	Nickel-dependent hydrogenase		Catalysis the reversible activation of hydrogen	PDC
IPR001109	PF01455	HupF/HypC family	HupF/HypC	[NiFe]-hydrogenase and other nickel metalloenzymes synthesis	PDC
IPR000671	PF01750	Hydrogenase maturation protease		Hydrogenase maturation	PDC
IPR002780	PF01924	Hydrogenase formation	HypA	Hydrogenase formation	PDC
IPR006894	PF04809	Hydrogenase expression protein	HupH	Hydrogenase synthesis, C-terminal domain	PDC
IPR010893	PF07449	Hydrogenase-1 expression protein	HyaE	Hydrogenase assembly	PDC
IPR023994	PF11939	Chaperone for [NiFe]-hydrogenase assembly	HybE	[NiFe] hydrogenases assembly chaperone	PDC
	PF13237	4Fe-4S dicluster domain		Mediate electron transfer	PDC
IPR000688	PF01155	Metallochaperone	hypA	[Ni,Fe]-hydrogenase and urease chaperone	PDC
IPR007038	PF04955	HupE / UreJ protein	HupE / UreJ	Hydrogenase / urease accessory proteins	PDC

T Trancriptomics, PDC Protein Domain Comparisons, GSM Genome Scale Modelling [30, 31];