SEED Subsystem: Serine-glyoxylate cycle in Shewanella oneidensis MR-1

Experiments:

Role Gene Name  
3-ketoacyl-CoA thiolase (EC 2.3.1.16) No genes
5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) SO4054 metF
5-FCL-like protein, but predicted not to be 5-formyltetrahydrofolate cyclo-ligase (5-FCL) No genes
5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) SO0774
Acetoacetyl-CoA reductase (EC 1.1.1.36) No genes
Acetyl-CoA acetyltransferase (EC 2.3.1.9) No genes
Aconitate hydratase (EC 4.2.1.3) No genes
Citrate synthase (EC 2.3.3.1) No genes
Citrate synthase (si) (EC 2.3.3.1) SO1926 gltA
Enolase (EC 4.2.1.11) SO3440 eno
Formate--tetrahydrofolate ligase (EC 6.3.4.3) SO0560 fhs
Formiminotetrahydrofolate cyclodeaminase (EC 4.3.1.4) No genes
Fumarate hydratase class I, aerobic (EC 4.2.1.2) SO2222
Fumarate hydratase class I, anaerobic (EC 4.2.1.2) No genes
GDSL-like lipase/acylhydrolase No genes
Glycerate kinase (EC 2.7.1.31) SO0505
  SO1770
  SO4577
Isocitrate lyase (EC 4.1.3.1) SO1484 aceA
Malate dehydrogenase (EC 1.1.1.37) SO0770 mdh
Malate synthase-related protein SO4706
Malyl-CoA lyase (EC 4.1.3.24) No genes
Methenyltetrahydrofolate cyclohydrolase (EC 3.5.4.9) SO1792 folD
Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) SO1894
Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) SO1896 pccB-1
Methylene tetrahydromethanopterin dehydrogenase (EC 1.5.99.9) No genes
Methylenetetrahydrofolate dehydrogenase (NADP+) (EC 1.5.1.5) SO1792 folD
Methylmalonyl-CoA mutase (EC 5.4.99.2) No genes
N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase (EC 3.5.4.27) No genes
Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) SO0162 pckA
Phosphoglyceromutase No genes
Propionyl-CoA carboxylase beta chain (EC 6.4.1.3) No genes
Propionyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.3) No genes
Putative malate dehydrogenase (EC 1.1.1.37), similar to archaeal MJ1425 No genes
Serine hydroxymethyltransferase (EC 2.1.2.1) SO3471 glyA
Serine--glyoxylate aminotransferase (EC 2.6.1.45) No genes
Serine--pyruvate aminotransferase (EC 2.6.1.51) SO4343
Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase No genes
Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) SO0398 frdA
  SO1928 sdhA
Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) SO0399 frdB
  SO1929 sdhB
Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) SO1933 sucD
Succinyl-CoA ligase [ADP-forming] beta chain (EC 6.2.1.5) SO1932 sucC
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5) SO1892 atoD
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) SO1891
crotonyl-CoA reductase No genes
cytosolic long-chain acyl-CoA thioester hydrolase family protein SO1486
  SO2647
  SO2772
decarboxylase No genes
isobutyryl-CoA dehydrogenase No genes
low-specificity D-threonine aldolase No genes
polyhydroxyalkanoate synthesis repressor PhaR No genes
putative glycerate kinase No genes
putative isobutyryl-CoA mutase, chain B No genes

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