Table 6

Pathways (including superpathways) that are common to human, bacteria and plant PGDBs

Class

Subclass

Pathway


Biosynthesis

Polyamines

Betaine biosynthesis

Polyamine biosynthesis

Fatty acids and lipids

Phospholipid biosynthesis

Fatty acid biosynthesis - initial steps

Fatty acid elongation - saturated

Cofactors, prosthetic groups, electron carriers

Pyridine nucleotide biosynthesis

Thioredoxin pathway

Glutathione biosynthesis

Pantothenate and coenzyme A biosynthesis

Pyridoxal 5'-phosphate salvage pathway

Polyisoprenoid biosynthesis

FormylTHF biosynthesis

Cell structures

Colanic acid building blocks biosynthesis

GDP-mannose metabolism

Carbohydrates

Gluconeogenesis

Trehalose degradation - low osmolarity

Aminoacyl-tRNAs

tRNA charging pathway

Amino acid biosynthesis

Proline biosynthesis I

Glycine biosynthesis I

Serine biosynthesis

Degradation

Sugars and polysaccharides

Glucose 1-phosphate metabolism

Galactose metabolism

Trehalose degradation - low osmolarity

Glycogen degradation

Ribose degradation

Other degradation

Removal of superoxide radicals

Nucleosides and nucleotides

(Deoxy)ribose phosphate metabolism

Fatty acids

Fatty acid oxidation pathway

Carboxylates, other

Acetate degradation

Amino acids, amines

L-serine degradation

Alcohols

Glycerol metabolism

Energy metabolism

Pyruvate dehydrogenase

TCA cycle - aerobic respiration

Glycolysis

Oxidative branch of the pentose phosphate pathway

Nonoxidative branch of the pentose phosphate pathway


HumanCyc, H. sapiens; EcoCyc, E. coli; AraCyc, A. thaliana. The pathways in the table are included in all three PGDBs.

Romero et al. Genome Biology 2004 6:R2   doi:10.1186/gb-2004-6-1-r2

Open Data