Methionine metabolism and salvage

Source	ID	Pathway
PathWhiz	PW002384

Pathway Metabolites

YMDB ID	Name CAS Number	IUPAC Name	Formula Weight
YMDB00024	5-(methylsulfanyl)-2,3-dioxopentyl phosphate	{[5-(methylsulfanyl)-2,3-dioxopentyl]oxy}phosphonic acid	C₆H₁₁O₆PS 242.187
YMDB00033	Glyoxylic acid 298-12-4	2-oxoacetic acid	C₂H₂O₃ 74.0355
YMDB00034	L-aspartic 4-semialdehyde 15106-57-7	(2S)-2-amino-4-oxobutanoic acid	C₄H₇NO₃ 117.1033
YMDB00040	5-Methylthioribose 1-phosphate 72843-83-5	{[(3R,4S)-3,4-dihydroxy-5-[(methylsulfanyl)methyl]oxolan-2-yl]oxy}phosphonic acid	C₆H₁₃O₇PS 260.202
YMDB00045	Coenzyme A 85-61-0	{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-2-({[hydroxy({hydroxy[(3R)-3-hydroxy-2,2-dimethyl-3-({2-[(2-sulfanylethyl)carbamoyl]ethyl}carbamoyl)propoxy]phosphoryl}oxy)phosphoryl]oxy}methyl)oxolan-3-yl]oxy}phosphonic acid	C₂₁H₃₆N₇O₁₆P₃S 767.534
YMDB00056	Acetic acid 64-19-7	acetic acid	C₂H₄O₂ 60.052
YMDB00058	Adenosine 58-61-7	(2R,3R,4S,5R)-2-(6-amino-9H-purin-9-yl)-5-(hydroxymethyl)oxolane-3,4-diol	C₁₀H₁₃N₅O₄ 267.2413
YMDB00071	2-Ketobutyric acid 600-18-0	2-oxobutanoic acid	C₄H₆O₃ 102.0886
YMDB00081	Tetrahydropteroyltri-L-glutamate	(2S)-2-[(4S)-4-[(4S)-4-{[4-({[(6S)-2-amino-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)phenyl]formamido}-4-carboxybutanamido]-4-carboxybutanamido]pentanedioic acid	C₂₉H₃₇N₉O₁₂ 703.6572
YMDB00104	L-Homoserine 672-15-1	(2S)-2-amino-4-hydroxybutanoic acid	C₄H₉NO₃ 119.1192
YMDB00109	Adenosine triphosphate 56-65-5	({[({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)phosphonic acid	C₁₀H₁₆N₅O₁₃P₃ 507.181
YMDB00113	4-Phospho-L-aspartic acid 22138-53-0	(2S)-2-amino-4-oxo-4-(phosphonooxy)butanoic acid	C₄H₈NO₇P 213.0826
YMDB00129	5-Methylthioribulose 1-phosphate 86316-83-8	{[(3R,4S)-3,4-dihydroxy-5-(methylsulfanyl)-2-oxopentyl]oxy}phosphonic acid	C₆H₁₃O₇PS 260.202
YMDB00178	5'-Methylthioadenosine 2457-80-9	(2R,3R,4S,5S)-2-(6-amino-9H-purin-9-yl)-5-[(methylsulfanyl)methyl]oxolane-3,4-diol	C₁₁H₁₅N₅O₃S 297.334
YMDB00185	1,2-Dihydroxy-3-keto-5-methylthiopentene 746507-19-7	(1Z)-1,2-dihydroxy-5-(methylsulfanyl)pent-1-en-3-one	C₆H₁₀O₃S 162.207
YMDB00198	S-Adenosylhomocysteine 979-92-0	(2S)-2-amino-4-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl}sulfanyl)butanoic acid	C₁₄H₂₀N₆O₅S 384.411
YMDB00219	Pyrophosphate 14000-31-8	(phosphonooxy)phosphonic acid	H₄O₇P₂ 177.9751
YMDB00297	S-Adenosylmethionine 29908-03-0	[(3S)-3-amino-3-carboxypropyl]({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl})methylsulfanium	C₁₅H₂₃N₆O₅S 399.445
YMDB00304	L-Phenylalanine 63-91-2	(2S)-2-amino-3-phenylpropanoic acid	C₉H₁₁NO₂ 165.1891
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
YMDB00318	L-Methionine 63-68-3	(2S)-2-amino-4-(methylsulfanyl)butanoic acid	C₅H₁₁NO₂S 149.211
YMDB00328	5-Methyltetrahydropteroyltri-L-glutamate		C₃₀H₃₉N₉O₁₂ 717.6838
YMDB00371	Homocysteine 454-29-5	2-amino-4-sulfanylbutanoic acid	C₄H₉NO₂S 135.185
YMDB00385	Formic acid 64-18-6	formic acid	CH₂O₂ 46.0254
YMDB00421	4-Methylthio-2-oxobutanoate 583-92-6	4-(methylsulfanyl)-2-oxobutanoic acid	C₅H₈O₃S 148.18
YMDB00426	NADPH 53-57-6	{[(2R,3R,4R,5R)-2-(6-amino-9H-purin-9-yl)-5-[({[({[(2R,3S,4R,5R)-5-(3-carbamoyl-1,4-dihydropyridin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)methyl]-4-hydroxyoxolan-3-yl]oxy}phosphonic acid	C₂₁H₃₀N₇O₁₇P₃ 745.4209
YMDB00427	NADP 53-59-8	1-[(2R,3R,4S,5R)-5-[({[({[(2R,3R,4R,5R)-5-(6-amino-9H-purin-9-yl)-3-hydroxy-4-(phosphonooxy)oxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy](hydroxy)phosphoryl}oxy)methyl]-3,4-dihydroxyoxolan-2-yl]-3-carbamoyl-1lambda5-pyridin-1-ylium	C₂₁H₂₉N₇O₁₇P₃ 744.4129
YMDB00438	S-Adenosyl-L-methionine 29908-03-0	[(3S)-3-amino-3-carboxypropyl]({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl})methylsulfanium	C₁₅H₂₃N₆O₅S 399.445
YMDB00518	5-Methyltetrahydropteroyltri-L-glutamic acid	(2S)-2-[(4S)-4-[(4S)-4-{[4-({[(6S)-2-amino-5-methyl-4-oxo-1,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)phenyl]formamido}-4-carboxybutanamido]-4-carboxybutanamido]pentanedioic acid	C₃₀H₃₉N₉O₁₂ 717.6838
YMDB00520	L-Homocysteine 6027-13-0	(2S)-2-amino-4-sulfanylbutanoic acid	C₄H₉NO₂S 135.185
YMDB00653	Hydrogen sulfide 7783-06-4	hydrogen sulfide	H₂S 34.081
YMDB00862	hydron 12408-02-5	hydron	H 1.00794
YMDB00887	Adenine 73-24-5	7H-purin-6-amine	C₅H₅N₅ 135.1267
YMDB00890	water 7732-18-5	water	H₂O 18.0153
YMDB00896	L-Aspartic acid 56-84-8	(2S)-2-aminobutanedioic acid	C₄H₇NO₄ 133.1027
YMDB00900	oxygen 7782-44-7	dioxygen	O₂ 31.9988
YMDB00907	phosphate 14265-44-2	phosphoric acid	O₄P 94.9714
YMDB00914	ADP 58-64-0	[({[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl)oxy]phosphonic acid	C₁₀H₁₅N₅O₁₀P₂ 427.2011
YMDB00995	D-Phenylalanine 673-06-3	(2R)-2-amino-3-phenylpropanoic acid	C₉H₁₁NO₂ 165.1891
YMDB16245	Acetylhomoserine	4-(acetyloxy)-2-aminobutanoic acid	C₆H₁₁NO₄ 161.1558
YMDB16276	5'-S-methyl-5'-thioadenosine	2-(6-amino-9H-purin-9-yl)-5-[(methylsulfanyl)methyl]oxolane-3,4-diol	C₁₁H₁₅N₅O₃S 297.334

Pathway Proteins

Uniprot ID	Gene Name Locus	Name	Type	Metabolites
P32626	UTR4 YEL038W	Enolase-phosphatase E1	Enzyme	5-(methylsulfanyl)-2,3-dioxopentyl phosphate Glycerol 3-phosphate 1,2-Dihydroxy-3-keto-5-methylthiopentene Glycerol Formic acid 4-Methylthio-2-oxobutanoate glycolic acid Phosphoglycolic acid hydron water phosphate glycerol 1-phosphate glycerol 2-phosphate
P47095	MDE1 YJR024C	Methylthioribulose-1-phosphate dehydratase	Enzyme	5-(methylsulfanyl)-2,3-dioxopentyl phosphate 5-Methylthioribulose 1-phosphate water
P13663	HOM2 YDR158W	Aspartate-semialdehyde dehydrogenase	Enzyme	L-aspartic 4-semialdehyde 4-Phospho-L-aspartic acid NADPH NADP hydron phosphate
Q06489	MRI1 YPR118W	Methylthioribose-1-phosphate isomerase	Enzyme	5-Methylthioribose 1-phosphate 5-Methylthioribulose 1-phosphate
P08465	MET2 YNL277W	Homoserine O-acetyltransferase	Enzyme	Coenzyme A L-Homoserine O-Acetyl-L-homoserine Acetyl-CoA Acetylhomoserine
P39954	SAH1 YER043C	Adenosylhomocysteinase	Enzyme	Adenosine S-Adenosylhomocysteine Homocysteine L-Homocysteine water
P05694	MET6 YER091C	5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase	Enzyme	Tetrahydropteroyltri-L-glutamate 5-Methyltetrahydrofolic acid L-Methionine 5-Methyltetrahydropteroyltri-L-glutamate Homocysteine 5,6,7,8-Tetrahydrofolic acid 5-Methyltetrahydropteroyltri-L-glutamic acid Tetrahydropteroyltri-L-glutamic acid L-Homocysteine hydron Selenomethionine Selenohomocysteine
P43623	IRC7 YFR055W	Putative cystathionine beta-lyase	Enzyme	Ammonia Pyruvic acid L-Cystathionine Homocysteine Ammonium L-Homocysteine water Selenohomocysteine Selenocystathionine
P10659	SAM1 YLR180W	S-adenosylmethionine synthase 1	Enzyme	Adenosine triphosphate Pyrophosphate S-Adenosylmethionine L-Methionine S-Adenosyl-L-methionine water phosphate
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
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
Q07938	MEU1 YLR017W	Multicopy enhancer of UAS2	Enzyme	5-Methylthioribose 1-phosphate 5'-Methylthioadenosine Adenine phosphate S-Methyl-5-thio-alpha-D-ribose 1-phosphate 5'-S-methyl-5'-thioadenosine
P31116	HOM6 YJR139C	Homoserine dehydrogenase	Enzyme	L-aspartic 4-semialdehyde L-Homoserine NAD NADH NAD(+) NADPH NADP hydron
P19358	SAM2 YDR502C	S-adenosylmethionine synthase 2	Enzyme	Adenosine triphosphate Pyrophosphate S-Adenosylmethionine L-Methionine S-Adenosyl-L-methionine water phosphate
Q03677	ADI1	1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase		1,2-Dihydroxy-3-keto-5-methylthiopentene Formic acid 4-Methylthio-2-oxobutanoate hydron oxygen