Genome Property Definition Page

Namelysine biosynthesis
DescriptionThe basic amino acid lysine may be synthesized by one of two types of pathways pathways in prokaryotes, the diaminopimelate (DAP) pathways and the alpha-aminoadipate (AAA) pathway. The DAP pathway has several variants including the dehydrogenase (reductive) pathway which requires ammonia and NADPH and the acetylated and succinylated pathways which do not. A non-reductive pathway which uses neither acetate or succinate protecting groups is found in plants but has not been observed in prokaryotes. The AAA pathway has a variant found in fungi and plants which has not been observed in prokaryotes.
JCVI RoleAspartate family
Parent PropertyGenProp0126: amino acid biosynthesis
Web ReferencesLysine biosynthesis I:MetaCyc
Lysine biosynthesis II:MetaCyc
Lysine biosynthesis IV:MetaCyc
Lysine biosynthesis III:MetaCyc
Lysine biosynthesis:KEGG

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
lysine biosynthesis pathways1YESGenProp0125 (GENPROP): lysine biosynthesis via diaminopimelate (DAP)
GenProp0193 (GENPROP): lysine biosynthesis via alpha-aminoadipate (AAA pathway)
GenProp0788 (GENPROP): lysine biosynthesis via diaminopimelate (DAP) utilizing ammonia and NADPH

Parent Properties
GenProp0126amino acid biosynthesis

Child Properties
GenProp0125lysine biosynthesis via diaminopimelate (DAP)
GenProp0193lysine biosynthesis via alpha-aminoadipate (AAA pathway)
GenProp0788lysine biosynthesis via diaminopimelate (DAP) utilizing ammonia and NADPH

Sibling Properties
GenProp0001chorismate biosynthesis via shikimate
GenProp0016selenocysteine system
GenProp0037tryptophan biosynthesis from ribose-5-phosphate
GenProp0039phenylalanine biosynthesis from chorismate
GenProp0045tyrosine biosynthesis from chorismate
GenProp0087arginine biosynthesis from glutatmate via N-acetylglutamate
GenProp0109histidine biosynthesis from ribose-5-phosphate
GenProp0111proline biosynthesis from glutamate
GenProp0117arginine biosynthesis from ornithine, carbamoyl-p and aspartate
GenProp0118ornithine biosynthesis from glutamate, acetylated branch
GenProp0159threonine biosynthesis from aspartate semialdehyde
GenProp0160aspartate semialdehyde biosynthesis from aspartate
GenProp0161methionine biosynthesis from homoserine
GenProp0162isoleucine biosynthesis from threonine and pyruvate
GenProp0163valine biosynthesis from pyruvate
GenProp0164leucine biosynthesis from pyruvate and acetyl-CoA
GenProp0178glycine cleavage system
GenProp0304cysteine biosynthesis, tRNA-dependent
GenProp0305cysteine biosynthesis
GenProp0729methionine salvage from methylthioadenosine
GenProp0797selenocysteinyl-tRNA, PSTK/SepSecS pathway