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◀ domain architecture  ·  operons  ·  ❔ guide

Operon NZ_CM128632.1:475,057–481,616

Syntrophomonas erecta DSM 16215 · 6 genes
6
genes
5
KO-annotated
9
reactions
9
pathways

Activity by pathway — click to expand; ranked by genes involved

Glycine, serine and threonine metabolismMetabolism; Amino acid metabolism4 genes · 11 rxns
Ser_00425 K02437 gcvH, GCSH R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00426 K00282 gcvPA R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00426 K00282 gcvPA R03425
Glycine + Lipoylprotein <=> [Protein]-S8-aminomethyldihydrolipoyllysine + CO2
glycine:lipoylprotein oxidoreductase (decarboxylating and acceptor-aminomethylating)
Ser_00427 K00283 gcvPB R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00427 K00283 gcvPB R03425
Glycine + Lipoylprotein <=> [Protein]-S8-aminomethyldihydrolipoyllysine + CO2
glycine:lipoylprotein oxidoreductase (decarboxylating and acceptor-aminomethylating)
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
Glyoxylate and dicarboxylate metabolismMetabolism; Carbohydrate metabolism4 genes · 11 rxns
Ser_00425 K02437 gcvH, GCSH R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00426 K00282 gcvPA R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00426 K00282 gcvPA R03425
Glycine + Lipoylprotein <=> [Protein]-S8-aminomethyldihydrolipoyllysine + CO2
glycine:lipoylprotein oxidoreductase (decarboxylating and acceptor-aminomethylating)
Ser_00427 K00283 gcvPB R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00427 K00283 gcvPB R03425
Glycine + Lipoylprotein <=> [Protein]-S8-aminomethyldihydrolipoyllysine + CO2
glycine:lipoylprotein oxidoreductase (decarboxylating and acceptor-aminomethylating)
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
One carbon pool by folateMetabolism; Metabolism of cofactors and vitamins1 genes · 2 rxns
Ser_00423 K01491 folD R01220
5,10-Methylenetetrahydrofolate + NADP+ <=> 5,10-Methenyltetrahydrofolate + NADPH
5,10-methylenetetrahydrofolate:NADP+ oxidoreductase
Ser_00423 K01491 folD R01655
5,10-Methenyltetrahydrofolate + H2O <=> 10-Formyltetrahydrofolate + H+
5,10-methenyltetrahydrofolate 5-hydrolase (decyclizing)
Other carbon fixation pathwaysMetabolism; Energy metabolism1 genes · 2 rxns
Ser_00423 K01491 folD R01220
5,10-Methylenetetrahydrofolate + NADP+ <=> 5,10-Methenyltetrahydrofolate + NADPH
5,10-methylenetetrahydrofolate:NADP+ oxidoreductase
Ser_00423 K01491 folD R01655
5,10-Methenyltetrahydrofolate + H2O <=> 10-Formyltetrahydrofolate + H+
5,10-methenyltetrahydrofolate 5-hydrolase (decyclizing)
Glycolysis / GluconeogenesisMetabolism; Carbohydrate metabolism1 genes · 6 rxns
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
Citrate cycle (TCA cycle)Metabolism; Carbohydrate metabolism1 genes · 6 rxns
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
Valine, leucine and isoleucine degradationMetabolism; Amino acid metabolism1 genes · 6 rxns
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
Pyruvate metabolismMetabolism; Carbohydrate metabolism1 genes · 6 rxns
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex
Propanoate metabolismMetabolism; Carbohydrate metabolism1 genes · 6 rxns
Ser_00428 K00382 DLD, lpd, pdhD R00209
Pyruvate + CoA + NAD+ <=> Acetyl-CoA + CO2 + NADH + H+
pyruvate:NAD+ 2-oxidoreductase (CoA-acetylating); pyruvate dehydrogenase complex
Ser_00428 K00382 DLD, lpd, pdhD R01221
Glycine + Tetrahydrofolate + NAD+ <=> 5,10-Methylenetetrahydrofolate + Ammonia + CO2 + NADH + H+
glycine:NAD+ 2-oxidoreductase (tetrahydrofolate-methylene-adding); glycine cleavage system
Ser_00428 K00382 DLD, lpd, pdhD R01698
Dihydrolipoamide + NAD+ <=> Lipoamide + NADH + H+
dihydrolipoamide:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R03815
Dihydrolipoylprotein + NAD+ <=> Lipoylprotein + NADH + H+
dihydrolipoylprotein:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R07618
Enzyme N6-(dihydrolipoyl)lysine + NAD+ <=> Enzyme N6-(lipoyl)lysine + NADH + H+
enzyme N6-(dihydrolipoyl)lysine:NAD+ oxidoreductase
Ser_00428 K00382 DLD, lpd, pdhD R08549
2-Oxoglutarate + CoA + NAD+ <=> Succinyl-CoA + CO2 + NADH + H+
2-oxoglutarate:NAD+ 2-oxidoreductase (CoA-succinylating); 2-oxoglutarate dehydrogenase complex

Overview / global maps (every metabolic gene maps here)

Metabolic pathways 5 genes
Ser_00423 Ser_00425 Ser_00426 Ser_00427 Ser_00428
Carbon metabolism 5 genes
Ser_00423 Ser_00425 Ser_00426 Ser_00427 Ser_00428
Biosynthesis of secondary metabolites 4 genes
Ser_00425 Ser_00426 Ser_00427 Ser_00428
Map 01130 4 genes
Ser_00425 Ser_00426 Ser_00427 Ser_00428
Microbial metabolism in diverse environments 2 genes
Ser_00423 Ser_00428

Reaction network — compounds linked by the reactions these genes catalyse

drag nodes · click an edge for the reaction

Genes

LocusProductKOECReactions
Ser_00423 bifunctional 5,10-methylenetetrahydrofolate dehydrogenase/5,10-methenyltetrahydrofolate cyclohydrolase K01491 folD 1.5.1.5,3.5.4.9 R01220,R01655
Ser_00424 glycine cleavage system aminomethyltransferase GcvT — — —
Ser_00425 glycine cleavage system protein GcvH K02437 gcvH, GCSH — R01221
Ser_00426 aminomethyl-transferring glycine dehydrogenase subunit GcvPA K00282 gcvPA 1.4.4.2 R01221,R03425
Ser_00427 aminomethyl-transferring glycine dehydrogenase subunit GcvPB K00283 gcvPB 1.4.4.2 R01221,R03425
Ser_00428 dihydrolipoyl dehydrogenase K00382 DLD, lpd, pdhD 1.8.1.4 R00209,R01221,R01698,R03815,R07618,R08549
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