MetaCyc Pathway: partial TCA cycle (obligate autotrophs) in Pseudomonas sp. DMC3

MetaCyc Pathway: partial TCA cycle (obligate autotrophs) in Pseudomonas sp. DMC3

Phosphoenolpyruvate carboxylase (in reverse):
phosphoenolpyruvate + hydrogen carbonate→oxaloacetate + phosphate (EC 4.1.1.31)

Citrate (Si)-synthase:
oxaloacetate + acetyl-CoA + H₂O→citrate + coenzyme A + H⁺ (EC 2.3.3.1; 2.3.3.16; 2.3.3.3)

oxaloacetate_[in] + an electron-transfer quinol→(S)-malate_[in] + an electron-transfer quinone (EC 1.1.5.4)

Aconitate hydratase:
citrate→cis-aconitate + H₂O (EC 4.2.1.3)

Fumarate hydratase:
(S)-malate→fumarate + H₂O (EC 4.2.1.2)

Aconitate hydratase:
cis-aconitate + H₂O→D-threo-isocitrate (EC 4.2.1.3)

Succinate dehydrogenase (ubiquinone) (in reverse):
fumarate_[in] + an electron-transfer quinol→succinate_[in] + an electron-transfer quinone (EC 1.3.5.1)

Isocitrate dehydrogenase (NADP(+)):
D-threo-isocitrate + NADP⁺→2-oxoglutarate + CO₂ + NADPH (EC 1.1.1.42)

Links:

Pathway details at MetaCyc
Fitness data for 15 genes
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All MetaCyc pathways for Pseudomonas sp. DMC3

Candidate genes for each reaction are identified from best hits to MetaCyc; by matching EC numbers (which are assigned by TIGRFam, SEED, or best hits to KEGG); or by matching SEED roles to KEGG reactions to MetaCyc reactions. See the "Protein" tab of each gene for more information