Lysine biosynthesis

Source	ID	Pathway
KEGG	00300

Pathway Metabolites

YMDB ID	Name CAS Number	IUPAC Name	Formula Weight	Structure
YMDB00019	Saccharopine 997-68-2	(2S)-2-{[(5S)-5-amino-5-carboxypentyl]amino}pentanedioic acid	C₁₁H₂₀N₂O₆ 276.2863
YMDB00034	L-aspartic 4-semialdehyde 15106-57-7	(2S)-2-amino-4-oxobutanoic acid	C₄H₇NO₃ 117.1033
YMDB00096	(2R)-Homocitric acid 3562-74-1	(2R)-2-hydroxybutane-1,2,4-tricarboxylic acid	C₇H₁₀O₇ 206.1501
YMDB00104	L-Homoserine 672-15-1	(2S)-2-amino-4-hydroxybutanoic acid	C₄H₉NO₃ 119.1192
YMDB00113	4-Phospho-L-aspartic acid 22138-53-0	(2S)-2-amino-4-oxo-4-(phosphonooxy)butanoic acid	C₄H₈NO₇P 213.0826
YMDB00142	Oxoadipic acid 3184-35-8	2-oxohexanedioic acid	C₆H₈O₅ 160.1247
YMDB00144	Homoisocitric acid	(1R,2S)-1-hydroxybutane-1,2,4-tricarboxylic acid	C₇H₁₀O₇ 206.1501
YMDB00153	Oxoglutaric acid 328-50-7	2-oxopentanedioic acid	C₅H₆O₅ 146.0981
YMDB00269	but-1-ene-1,2,4-tricarboxylic acid	(1Z)-but-1-ene-1,2,4-tricarboxylic acid	C₇H₈O₆ 188.1348
YMDB00305	Aminoadipic acid 542-32-5		C₆H₁₁NO₄ 161.1558
YMDB00312	Acetyl-CoA 72-89-9	{[(2R,3S,4R,5R)-2-({[({[(3R)-3-[(2-{[2-(acetylsulfanyl)ethyl]carbamoyl}ethyl)carbamoyl]-3-hydroxy-2,2-dimethylpropoxy](hydroxy)phosphoryl}oxy)(hydroxy)phosphoryl]oxy}methyl)-5-(6-amino-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}phosphonic acid	C₂₃H₃₈N₇O₁₇P₃S 809.571
YMDB00330	L-Lysine 56-87-1	(2S)-2,6-diaminohexanoic acid	C₆H₁₄N₂O₂ 146.1876
YMDB00705	2-Oxaloglutaric acid	1-oxobutane-1,2,4-tricarboxylic acid	C₇H₈O₇ 204.1342
YMDB00721	L-Allysine 1962-83-0	(2S)-2-amino-6-oxohexanoic acid	C₆H₁₁NO₃ 145.1564
YMDB00896	L-Aspartic acid 56-84-8	(2S)-2-aminobutanedioic acid	C₄H₇NO₄ 133.1027
YMDB00999	L-2-aminoadipate 542-32-5	(2S)-2-aminohexanedioic acid	C₆H₁₁NO₄ 161.1558
YMDB01022	L-aspartate 4-semialdehyde 15106-57-7		C₄H₆NO₃ 116.0953
YMDB01067	4-phospho-L-aspartate 22138-53-0		C₄H₅NO₇P 210.0588

Pathway Proteins

Uniprot ID	Gene Name Locus	Name	Type	Metabolites
P38998	LYS1 YIR034C	Saccharopine dehydrogenase [NAD+, L-lysine-forming]	Enzyme	Saccharopine NAD NADH Oxoglutaric acid L-Lysine NAD(+) NADPH hydron water
P38999	LYS9 YNR050C	Saccharopine dehydrogenase [NADP+, L-glutamate-forming]	Enzyme	Saccharopine L-Glutamic acid Allysine NADPH NADP L-Allysine hydron water
P18544	ARG8 YOL140W	Acetylornithine aminotransferase, mitochondrial	Enzyme	N-Acetylornithine Oxoglutaric acid Succinic acid semialdehyde N-Acetyl-L-glutamate 5-semialdehyde L-Glutamic acid gamma-Aminobutyric acid 2-Acetamido-5-oxopentanoic acid
P13663	HOM2 YDR158W	Aspartate-semialdehyde dehydrogenase	Enzyme	L-aspartic 4-semialdehyde 4-Phospho-L-aspartic acid NADPH NADP hydron phosphate
Q12122	LYS21 YDL131W	Homocitrate synthase, mitochondrial	Enzyme	Coenzyme A (2R)-Homocitric acid Oxoglutaric acid Acetyl-CoA hydron water
P48570	LYS20 YDL182W	Homocitrate synthase, cytosolic isozyme	Enzyme	Coenzyme A (2R)-Homocitric acid Oxoglutaric acid Acetyl-CoA hydron water
P07702	LYS2 YBR115C	L-aminoadipate-semialdehyde dehydrogenase	Enzyme	Adenosine monophosphate Adenosine triphosphate NAD NADH Pyrophosphate Aminoadipic acid Allysine NAD(+) NADPH NADP L-Allysine hydron water L-2-aminoadipate
P10869	HOM3 YER052C	Aspartokinase	Enzyme	L-aspartic 4-semialdehyde L-Homoserine Adenosine triphosphate 4-Phospho-L-aspartic acid NADPH NADP hydron L-Aspartic acid ADP
P40495	LYS12 YIL094C	Homoisocitrate dehydrogenase, mitochondrial	Enzyme	Isocitric acid NAD Oxoadipic acid NADH Homoisocitric acid Oxoglutaric acid NAD(+) 2-Oxaloglutaric acid hydron Carbon dioxide (1R,2S)-homoisocitrate
P38840	ARO9 YHR137W	Aromatic amino acid aminotransferase 2	Enzyme	2-Ketobutyric acid L-Tryptophan Oxoglutaric acid L-Alanine 3-(indol-3-yl)pyruvic acid Pyruvic acid L-Glutamic acid L-Phenylalanine L-Methionine L-Tyrosine 4-Methylthio-2-oxobutanoate keto-phenylpyruvic acid (4-hydroxyphenyl)pyruvic acid 3-(indol-3-yl)pyruvate
P53090	ARO8 YGL202W	Aromatic amino acid aminotransferase 1	Enzyme	L-Tryptophan Oxoadipic acid Oxoglutaric acid 3-(indol-3-yl)pyruvic acid L-Glutamic acid L-Phenylalanine L-Tyrosine keto-phenylpyruvic acid (4-hydroxyphenyl)pyruvic acid L-2-aminoadipate 3-(indol-3-yl)pyruvate
P49367	LYS4 YDR234W	Homoaconitase, mitochondrial	Enzyme	Isocitric acid Citric acid (2R)-Homocitric acid Homoisocitric acid but-1-ene-1,2,4-tricarboxylic acid cis-aconitic acid water cis-homoaconitate (1R,2S)-homoisocitrate
P31116	HOM6 YJR139C	Homoserine dehydrogenase	Enzyme	L-aspartic 4-semialdehyde L-Homoserine NAD NADH NAD(+) NADPH NADP hydron