| Pathway | #Steps | #Present | #Specific |
|---|
| L-alanine biosynthesis III | 1 | 1 | 1 |
| L-malate degradation I | 1 | 1 | 1 |
| 3-(4-hydroxyphenyl)pyruvate biosynthesis | 1 | 1 | 1 |
| L-malate degradation II | 1 | 1 | 1 |
| L-cysteine degradation IV | 1 | 1 | 1 |
| biotin biosynthesis from 8-amino-7-oxononanoate I | 4 | 4 | 3 |
| glyoxylate cycle | 6 | 6 | 3 |
| malate/L-aspartate shuttle pathway | 2 | 2 | 1 |
| glycerol degradation V | 2 | 2 | 1 |
| glycolate and glyoxylate degradation II | 2 | 2 | 1 |
| ribose phosphorylation | 2 | 2 | 1 |
| L-phenylalanine biosynthesis III (cytosolic, plants) | 2 | 2 | 1 |
| biotin biosynthesis from 8-amino-7-oxononanoate II | 4 | 3 | 2 |
| chitin deacetylation | 4 | 3 | 2 |
| biotin biosynthesis II | 6 | 4 | 3 |
| atromentin biosynthesis | 2 | 1 | 1 |
| L-tyrosine degradation II | 2 | 1 | 1 |
| 8-amino-7-oxononanoate biosynthesis III | 2 | 1 | 1 |
| 8-amino-7-oxononanoate biosynthesis II | 2 | 1 | 1 |
| cytidylyl molybdenum cofactor sulfurylation | 2 | 1 | 1 |
| biotin biosynthesis from 8-amino-7-oxononanoate III | 5 | 3 | 2 |
| spermine and spermidine degradation I | 5 | 2 | 2 |
| biotin biosynthesis I | 15 | 15 | 5 |
| L-phenylalanine biosynthesis I | 3 | 3 | 1 |
| glycerol degradation I | 3 | 3 | 1 |
| L-tyrosine biosynthesis I | 3 | 3 | 1 |
| 2-deoxy-D-ribose degradation I | 3 | 3 | 1 |
| tetrahydrofolate biosynthesis I | 3 | 3 | 1 |
| dTMP de novo biosynthesis (mitochondrial) | 3 | 3 | 1 |
| L-leucine degradation III | 3 | 2 | 1 |
| L-carnitine degradation II | 3 | 2 | 1 |
| L-phenylalanine degradation II (anaerobic) | 3 | 2 | 1 |
| L-tyrosine degradation IV (to 4-methylphenol) | 3 | 1 | 1 |
| bis(guanylyl molybdopterin) cofactor sulfurylation | 3 | 1 | 1 |
| L-leucine degradation V (oxidative Stickland reaction) | 3 | 1 | 1 |
| gluconeogenesis I | 13 | 13 | 4 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 11 | 4 |
| thiazole component of thiamine diphosphate biosynthesis II | 7 | 5 | 2 |
| anaerobic energy metabolism (invertebrates, cytosol) | 7 | 5 | 2 |
| C4 photosynthetic carbon assimilation cycle, NADP-ME type | 7 | 4 | 2 |
| superpathway of L-alanine biosynthesis | 4 | 4 | 1 |
| glycerol and glycerophosphodiester degradation | 4 | 4 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 11 | 3 |
| L-tyrosine biosynthesis III | 4 | 3 | 1 |
| tetrahydromonapterin biosynthesis | 4 | 3 | 1 |
| L-phenylalanine biosynthesis II | 4 | 2 | 1 |
| L-tyrosine degradation III | 4 | 2 | 1 |
| L-tyrosine biosynthesis II | 4 | 2 | 1 |
| putrescine degradation III | 4 | 2 | 1 |
| L-phenylalanine degradation III | 4 | 2 | 1 |
| tRNA-uridine 2-thiolation (mammalian mitochondria) | 4 | 1 | 1 |
| tRNA-uridine 2-thiolation (yeast mitochondria) | 4 | 1 | 1 |
| C4 photosynthetic carbon assimilation cycle, PEPCK type | 14 | 9 | 3 |
| 8-amino-7-oxononanoate biosynthesis IV | 5 | 4 | 1 |
| [2Fe-2S] iron-sulfur cluster biosynthesis | 10 | 4 | 2 |
| superpathway of L-phenylalanine and L-tyrosine biosynthesis | 5 | 2 | 1 |
| L-tyrosine degradation I | 5 | 1 | 1 |
| superpathway of plastoquinol biosynthesis | 5 | 1 | 1 |
| 4-hydroxybenzoate biosynthesis I (eukaryotes) | 5 | 1 | 1 |
| L-leucine degradation IV (reductive Stickland reaction) | 5 | 1 | 1 |
| L-phenylalanine degradation VI (reductive Stickland reaction) | 5 | 1 | 1 |
| tRNA-uridine 2-thiolation (thermophilic bacteria) | 5 | 1 | 1 |
| L-tyrosine degradation V (reductive Stickland reaction) | 5 | 1 | 1 |
| 8-amino-7-oxononanoate biosynthesis I | 11 | 11 | 2 |
| superpathway of thiamine diphosphate biosynthesis II | 11 | 9 | 2 |
| C4 photosynthetic carbon assimilation cycle, NAD-ME type | 11 | 8 | 2 |
| superpathway of anaerobic energy metabolism (invertebrates) | 17 | 12 | 3 |
| molybdopterin biosynthesis | 6 | 6 | 1 |
| L-leucine biosynthesis | 6 | 6 | 1 |
| thiazole component of thiamine diphosphate biosynthesis I | 6 | 6 | 1 |
| TCA cycle VIII (Chlamydia) | 6 | 5 | 1 |
| L-leucine degradation I | 6 | 2 | 1 |
| methylgallate degradation | 6 | 2 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 25 | 4 |
| superpathway of glycol metabolism and degradation | 7 | 7 | 1 |
| pyruvate fermentation to propanoate I | 7 | 5 | 1 |
| incomplete reductive TCA cycle | 7 | 5 | 1 |
| D-xylose degradation IV | 7 | 3 | 1 |
| mixed acid fermentation | 16 | 16 | 2 |
| protocatechuate degradation I (meta-cleavage pathway) | 8 | 3 | 1 |
| L-arabinose degradation IV | 8 | 2 | 1 |
| tRNA-uridine 2-thiolation (cytoplasmic) | 8 | 1 | 1 |
| superpathway of aromatic amino acid biosynthesis | 18 | 18 | 2 |
| Entner-Doudoroff pathway I | 9 | 9 | 1 |
| folate transformations III (E. coli) | 9 | 9 | 1 |
| TCA cycle II (plants and fungi) | 9 | 7 | 1 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 7 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 7 | 1 |
| Entner-Doudoroff pathway III (semi-phosphorylative) | 9 | 6 | 1 |
| Entner-Doudoroff pathway II (non-phosphorylative) | 9 | 6 | 1 |
| L-phenylalanine degradation IV (mammalian, via side chain) | 9 | 4 | 1 |
| tunicamycin biosynthesis | 9 | 2 | 1 |
| superpathway of L-tyrosine biosynthesis | 10 | 10 | 1 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| superpathway of thiamine diphosphate biosynthesis I | 10 | 10 | 1 |
| TCA cycle I (prokaryotic) | 10 | 9 | 1 |
| Rubisco shunt | 10 | 9 | 1 |
| superpathway of tetrahydrofolate biosynthesis | 10 | 9 | 1 |
| glycolysis IV | 10 | 8 | 1 |
| TCA cycle III (animals) | 10 | 8 | 1 |
| anaerobic energy metabolism (invertebrates, mitochondrial) | 10 | 7 | 1 |
| glycolysis V (Pyrococcus) | 10 | 7 | 1 |
| superpathway of vanillin and vanillate degradation | 10 | 3 | 1 |
| rosmarinic acid biosynthesis I | 10 | 1 | 1 |
| glycolysis III (from glucose) | 11 | 11 | 1 |
| glycolysis II (from fructose 6-phosphate) | 11 | 11 | 1 |
| folate transformations II (plants) | 11 | 10 | 1 |
| superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle | 22 | 18 | 2 |
| glycolysis VI (from fructose) | 11 | 8 | 1 |
| reductive TCA cycle I | 11 | 8 | 1 |
| tRNA-uridine 2-thiolation and selenation (bacteria) | 11 | 7 | 1 |
| L-glutamate degradation VIII (to propanoate) | 11 | 5 | 1 |
| tropane alkaloids biosynthesis | 11 | 1 | 1 |
| (S)-reticuline biosynthesis I | 11 | 1 | 1 |
| homolactic fermentation | 12 | 12 | 1 |
| superpathway of tetrahydrofolate biosynthesis and salvage | 12 | 11 | 1 |
| gluconeogenesis III | 12 | 9 | 1 |
| reductive TCA cycle II | 12 | 8 | 1 |
| syringate degradation | 12 | 3 | 1 |
| glycolysis I (from glucose 6-phosphate) | 13 | 13 | 1 |
| (S)-lactate fermentation to propanoate, acetate and hydrogen | 13 | 10 | 1 |
| formaldehyde assimilation I (serine pathway) | 13 | 8 | 1 |
| superpathway of rosmarinic acid biosynthesis | 14 | 2 | 1 |
| crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) | 14 | 2 | 1 |
| Bifidobacterium shunt | 15 | 13 | 1 |
| glycerol degradation to butanol | 16 | 11 | 1 |
| superpathway of hyoscyamine (atropine) and scopolamine biosynthesis | 16 | 3 | 1 |
| superpathway of glucose and xylose degradation | 17 | 17 | 1 |
| superpathway of branched chain amino acid biosynthesis | 17 | 17 | 1 |
| superpathway of glycolysis and the Entner-Doudoroff pathway | 17 | 17 | 1 |
| superpathway of hexitol degradation (bacteria) | 18 | 18 | 1 |
| heterolactic fermentation | 18 | 16 | 1 |
| hexitol fermentation to lactate, formate, ethanol and acetate | 19 | 19 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 17 | 1 |
| methylaspartate cycle | 19 | 9 | 1 |
| superpathway of chorismate metabolism | 59 | 54 | 3 |
| superpathway of N-acetylneuraminate degradation | 22 | 22 | 1 |
| photosynthetic 3-hydroxybutanoate biosynthesis (engineered) | 26 | 19 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 19 | 1 |
| anaerobic aromatic compound degradation (Thauera aromatica) | 27 | 3 | 1 |
| odd iso-branched-chain fatty acid biosynthesis | 34 | 24 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 18 | 1 |
| Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 22 | 1 |