Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
| Pathway | #Steps | #Present | #Specific |
|---|
| putrescine biosynthesis II | 3 | 3 | 3 |
| L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway) | 3 | 3 | 3 |
| L-cysteine biosynthesis I | 2 | 2 | 2 |
| L-aspartate degradation I | 1 | 1 | 1 |
| L-ornithine degradation I (L-proline biosynthesis) | 1 | 1 | 1 |
| 3-(4-hydroxyphenyl)pyruvate biosynthesis | 1 | 1 | 1 |
| arginine dependent acid resistance | 1 | 1 | 1 |
| L-aspartate biosynthesis | 1 | 1 | 1 |
| L-glutamate degradation I | 1 | 1 | 1 |
| L-proline degradation I | 3 | 3 | 2 |
| L-arginine degradation I (arginase pathway) | 3 | 3 | 2 |
| 4-aminobutanoate degradation I | 2 | 2 | 1 |
| putrescine degradation V | 2 | 2 | 1 |
| indole-3-acetate biosynthesis III (bacteria) | 2 | 2 | 1 |
| L-lactaldehyde degradation (aerobic) | 2 | 2 | 1 |
| L-arginine degradation III (arginine decarboxylase/agmatinase pathway) | 2 | 2 | 1 |
| 4-aminobutanoate degradation II | 2 | 2 | 1 |
| L-arginine degradation VII (arginase 3 pathway) | 2 | 2 | 1 |
| putrescine biosynthesis I | 2 | 2 | 1 |
| acrylonitrile degradation I | 2 | 2 | 1 |
| acetate and ATP formation from acetyl-CoA I | 2 | 2 | 1 |
| indole-3-acetate biosynthesis IV (bacteria) | 2 | 2 | 1 |
| 4-aminobutanoate degradation III | 2 | 2 | 1 |
| L-glutamate degradation II | 2 | 2 | 1 |
| L-tyrosine degradation II | 2 | 1 | 1 |
| ethylene glycol degradation | 2 | 1 | 1 |
| atromentin biosynthesis | 2 | 1 | 1 |
| malate/L-aspartate shuttle pathway | 2 | 1 | 1 |
| sulfoacetaldehyde degradation I | 2 | 1 | 1 |
| putrescine degradation I | 2 | 1 | 1 |
| L-tryptophan degradation IV (via indole-3-lactate) | 2 | 1 | 1 |
| L-proline biosynthesis II (from arginine) | 2 | 1 | 1 |
| L-arginine degradation II (AST pathway) | 5 | 5 | 2 |
| seleno-amino acid biosynthesis (plants) | 5 | 3 | 2 |
| superpathway of polyamine biosynthesis II | 8 | 6 | 3 |
| L-ornithine biosynthesis II | 3 | 3 | 1 |
| ethanol degradation IV | 3 | 3 | 1 |
| L-tyrosine biosynthesis I | 3 | 3 | 1 |
| L-phenylalanine biosynthesis I | 3 | 3 | 1 |
| superpathway of acetate utilization and formation | 3 | 3 | 1 |
| pyruvate fermentation to acetate II | 3 | 3 | 1 |
| L-proline biosynthesis III (from L-ornithine) | 3 | 3 | 1 |
| ethanol degradation II | 3 | 3 | 1 |
| superpathway of 4-aminobutanoate degradation | 3 | 3 | 1 |
| L-alanine degradation II (to D-lactate) | 3 | 3 | 1 |
| pyruvate fermentation to acetate I | 3 | 2 | 1 |
| ethanol degradation III | 3 | 2 | 1 |
| L-arginine degradation X (arginine monooxygenase pathway) | 3 | 2 | 1 |
| L-asparagine degradation III (mammalian) | 3 | 2 | 1 |
| pyruvate fermentation to acetate IV | 3 | 2 | 1 |
| L-phenylalanine degradation II (anaerobic) | 3 | 2 | 1 |
| putrescine degradation IV | 3 | 2 | 1 |
| superpathway of acrylonitrile degradation | 3 | 2 | 1 |
| methylglyoxal degradation IV | 3 | 2 | 1 |
| pyruvate fermentation to acetate VII | 3 | 2 | 1 |
| hypotaurine degradation | 3 | 2 | 1 |
| methylglyoxal degradation V | 3 | 2 | 1 |
| superpathway of sulfolactate degradation | 6 | 2 | 2 |
| histamine degradation | 3 | 1 | 1 |
| (R)-cysteate degradation | 3 | 1 | 1 |
| sulfolactate degradation III | 3 | 1 | 1 |
| 5'-deoxyadenosine degradation I | 3 | 1 | 1 |
| ethene biosynthesis IV (engineered) | 3 | 1 | 1 |
| L-tyrosine degradation IV (to 4-methylphenol) | 3 | 1 | 1 |
| indole-3-acetate biosynthesis VI (bacteria) | 3 | 1 | 1 |
| L-Nδ-acetylornithine biosynthesis | 7 | 6 | 2 |
| 4-aminobutanoate degradation V | 7 | 3 | 2 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 7 | 3 |
| L-citrulline biosynthesis | 8 | 8 | 2 |
| L-arginine degradation VI (arginase 2 pathway) | 4 | 4 | 1 |
| superpathway of putrescine biosynthesis | 4 | 4 | 1 |
| superpathway of L-aspartate and L-asparagine biosynthesis | 4 | 3 | 1 |
| GABA shunt II | 4 | 3 | 1 |
| pyruvate fermentation to acetate and (S)-lactate I | 4 | 3 | 1 |
| putrescine degradation III | 4 | 3 | 1 |
| phytol degradation | 4 | 3 | 1 |
| L-cysteine biosynthesis VII (from S-sulfo-L-cysteine) | 4 | 3 | 1 |
| L-tyrosine degradation III | 4 | 2 | 1 |
| L-tryptophan degradation X (mammalian, via tryptamine) | 4 | 2 | 1 |
| L-phenylalanine degradation III | 4 | 2 | 1 |
| GABA shunt I | 4 | 2 | 1 |
| D-arabinose degradation II | 4 | 2 | 1 |
| fatty acid α-oxidation I (plants) | 4 | 2 | 1 |
| pyruvate fermentation to acetate and lactate II | 4 | 2 | 1 |
| sulfolactate degradation II | 4 | 1 | 1 |
| 5'-deoxyadenosine degradation II | 4 | 1 | 1 |
| L-tryptophan degradation VIII (to tryptophol) | 4 | 1 | 1 |
| N-3-oxalyl-L-2,3-diaminopropanoate biosynthesis | 4 | 1 | 1 |
| ethene biosynthesis II (microbes) | 4 | 1 | 1 |
| spermidine biosynthesis III | 4 | 1 | 1 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 9 | 3 |
| superpathway of sulfate assimilation and cysteine biosynthesis | 9 | 9 | 2 |
| L-arginine degradation XIII (reductive Stickland reaction) | 5 | 5 | 1 |
| L-lysine degradation IV | 5 | 5 | 1 |
| L-tyrosine degradation I | 5 | 5 | 1 |
| L-ornithine biosynthesis I | 5 | 5 | 1 |
| octane oxidation | 5 | 4 | 1 |
| ethanolamine utilization | 5 | 4 | 1 |
| mitochondrial NADPH production (yeast) | 5 | 4 | 1 |
| lactate biosynthesis (archaea) | 5 | 3 | 1 |
| trans-4-hydroxy-L-proline degradation I | 5 | 3 | 1 |
| acetylene degradation (anaerobic) | 5 | 3 | 1 |
| sphingosine and sphingosine-1-phosphate metabolism | 10 | 4 | 2 |
| (S)-propane-1,2-diol degradation | 5 | 2 | 1 |
| dopamine degradation | 5 | 2 | 1 |
| S-methyl-5-thio-α-D-ribose 1-phosphate degradation II | 5 | 2 | 1 |
| superpathway of plastoquinol biosynthesis | 5 | 2 | 1 |
| S-methyl-5-thio-α-D-ribose 1-phosphate degradation III | 5 | 2 | 1 |
| L-tyrosine degradation V (reductive Stickland reaction) | 5 | 1 | 1 |
| L-tryptophan degradation XIII (reductive Stickland reaction) | 5 | 1 | 1 |
| 4-hydroxybenzoate biosynthesis I (eukaryotes) | 5 | 1 | 1 |
| L-phenylalanine degradation VI (reductive Stickland reaction) | 5 | 1 | 1 |
| C4 photosynthetic carbon assimilation cycle, NAD-ME type | 11 | 6 | 2 |
| superpathway of L-threonine biosynthesis | 6 | 6 | 1 |
| superpathway of L-citrulline metabolism | 12 | 10 | 2 |
| TCA cycle VIII (Chlamydia) | 6 | 5 | 1 |
| L-lysine degradation X | 6 | 5 | 1 |
| L-threonine degradation I | 6 | 4 | 1 |
| thiazole component of thiamine diphosphate biosynthesis I | 6 | 4 | 1 |
| hydrogen sulfide biosynthesis II (mammalian) | 6 | 4 | 1 |
| 3-methyl-branched fatty acid α-oxidation | 6 | 3 | 1 |
| indole-3-acetate biosynthesis II | 12 | 5 | 2 |
| L-lysine degradation III | 6 | 2 | 1 |
| superpathway of taurine degradation | 6 | 2 | 1 |
| methanogenesis from acetate | 6 | 2 | 1 |
| coenzyme M biosynthesis II | 6 | 1 | 1 |
| alkane oxidation | 6 | 1 | 1 |
| D-cycloserine biosynthesis | 6 | 1 | 1 |
| (5R)-carbapenem carboxylate biosynthesis | 6 | 1 | 1 |
| noradrenaline and adrenaline degradation | 13 | 8 | 2 |
| thiazole component of thiamine diphosphate biosynthesis II | 7 | 5 | 1 |
| superpathway of glycol metabolism and degradation | 7 | 5 | 1 |
| C4 photosynthetic carbon assimilation cycle, PEPCK type | 14 | 9 | 2 |
| serotonin degradation | 7 | 4 | 1 |
| anaerobic energy metabolism (invertebrates, cytosol) | 7 | 4 | 1 |
| L-lysine degradation I | 7 | 4 | 1 |
| acetyl-CoA fermentation to butanoate | 7 | 3 | 1 |
| L-glutamate degradation XI (reductive Stickland reaction) | 7 | 3 | 1 |
| L-cysteine biosynthesis VI (reverse transsulfuration) | 7 | 3 | 1 |
| ceramide degradation by α-oxidation | 7 | 2 | 1 |
| S-methyl-5-thio-α-D-ribose 1-phosphate degradation I | 7 | 2 | 1 |
| limonene degradation IV (anaerobic) | 7 | 1 | 1 |
| superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) | 8 | 7 | 1 |
| superpathway of polyamine biosynthesis I | 8 | 6 | 1 |
| superpathway of methylglyoxal degradation | 8 | 5 | 1 |
| L-rhamnose degradation II | 8 | 4 | 1 |
| aromatic biogenic amine degradation (bacteria) | 8 | 4 | 1 |
| lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) | 8 | 4 | 1 |
| superpathway of ornithine degradation | 8 | 4 | 1 |
| ceramide and sphingolipid recycling and degradation (yeast) | 16 | 4 | 2 |
| superpathway of arginine and polyamine biosynthesis | 17 | 15 | 2 |
| superpathway of aromatic amino acid biosynthesis | 18 | 18 | 2 |
| L-lysine biosynthesis I | 9 | 9 | 1 |
| L-arginine biosynthesis I (via L-ornithine) | 9 | 9 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis I | 18 | 16 | 2 |
| L-arginine biosynthesis III (via N-acetyl-L-citrulline) | 9 | 8 | 1 |
| superpathway of L-methionine biosynthesis (transsulfuration) | 9 | 7 | 1 |
| Entner-Doudoroff pathway II (non-phosphorylative) | 9 | 6 | 1 |
| superpathway of Clostridium acetobutylicum acidogenic fermentation | 9 | 5 | 1 |
| L-phenylalanine degradation IV (mammalian, via side chain) | 9 | 5 | 1 |
| superpathway of L-alanine fermentation (Stickland reaction) | 9 | 4 | 1 |
| superpathway of fermentation (Chlamydomonas reinhardtii) | 9 | 4 | 1 |
| superpathway of seleno-compound metabolism | 19 | 8 | 2 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| L-arginine biosynthesis II (acetyl cycle) | 10 | 10 | 1 |
| superpathway of L-tyrosine biosynthesis | 10 | 10 | 1 |
| superpathway of thiamine diphosphate biosynthesis I | 10 | 8 | 1 |
| L-glutamate degradation V (via hydroxyglutarate) | 10 | 6 | 1 |
| L-lysine fermentation to acetate and butanoate | 10 | 3 | 1 |
| rosmarinic acid biosynthesis I | 10 | 1 | 1 |
| superpathway of thiamine diphosphate biosynthesis II | 11 | 9 | 1 |
| L-methionine salvage cycle III | 11 | 5 | 1 |
| L-methionine salvage cycle II (plants) | 11 | 3 | 1 |
| gallate degradation III (anaerobic) | 11 | 3 | 1 |
| (S)-reticuline biosynthesis I | 11 | 1 | 1 |
| superpathway of L-methionine biosynthesis (by sulfhydrylation) | 12 | 12 | 1 |
| superpathway of fucose and rhamnose degradation | 12 | 5 | 1 |
| L-methionine salvage cycle I (bacteria and plants) | 12 | 4 | 1 |
| aspartate superpathway | 25 | 22 | 2 |
| superpathway of L-isoleucine biosynthesis I | 13 | 13 | 1 |
| (S)-lactate fermentation to propanoate, acetate and hydrogen | 13 | 4 | 1 |
| superpathway of rosmarinic acid biosynthesis | 14 | 1 | 1 |
| mixed acid fermentation | 16 | 11 | 1 |
| superpathway of anaerobic energy metabolism (invertebrates) | 17 | 8 | 1 |
| superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation | 17 | 7 | 1 |
| nicotine degradation I (pyridine pathway) | 17 | 5 | 1 |
| heterolactic fermentation | 18 | 13 | 1 |
| superpathway of L-threonine metabolism | 18 | 11 | 1 |
| hexitol fermentation to lactate, formate, ethanol and acetate | 19 | 13 | 1 |
| methylaspartate cycle | 19 | 9 | 1 |
| superpathway of methanogenesis | 21 | 2 | 1 |
| superpathway of L-lysine degradation | 43 | 17 | 2 |
| superpathway of N-acetylneuraminate degradation | 22 | 14 | 1 |
| purine nucleobases degradation II (anaerobic) | 24 | 16 | 1 |
| anaerobic aromatic compound degradation (Thauera aromatica) | 27 | 4 | 1 |
| superpathway of chorismate metabolism | 59 | 42 | 2 |
| superpathway of pentose and pentitol degradation | 42 | 16 | 1 |
| Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 20 | 1 |