SEED Subsystem: Serine-glyoxylate cycle in Herbaspirillum seropedicae SmR1

Experiments:

Role Gene Name D-Glucose (C) with ammonium chloride; anaerobic; 3 days  
⨯
3-ketoacyl-CoA thiolase (EC 2.3.1.16) HSERO_RS19070 +0.0
5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) HSERO_RS21425 -3.5
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) HSERO_RS21420 -2.3
Acetoacetyl-CoA reductase (EC 1.1.1.36) HSERO_RS15035 N.D.
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) HSERO_RS06380 -0.0
  HSERO_RS14890 N.D.
Enolase (EC 4.2.1.11) HSERO_RS13910 N.D.
Formate--tetrahydrofolate ligase (EC 6.3.4.3) No genes
Formiminotetrahydrofolate cyclodeaminase (EC 4.3.1.4) No genes
Fumarate hydratase class I, aerobic (EC 4.2.1.2) HSERO_RS07760 N.D.
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) HSERO_RS10055 -0.4
Isocitrate lyase (EC 4.1.3.1) HSERO_RS10565 -1.6
Malate dehydrogenase (EC 1.1.1.37) HSERO_RS14925 N.D.
  HSERO_RS16685 +0.4
Malate synthase-related protein No genes
Malyl-CoA lyase (EC 4.1.3.24) No genes
Methenyltetrahydrofolate cyclohydrolase (EC 3.5.4.9) HSERO_RS07295 N.D.
Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) HSERO_RS23460 -0.2
Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) HSERO_RS23455 -0.5
Methylene tetrahydromethanopterin dehydrogenase (EC 1.5.99.9) No genes
Methylenetetrahydrofolate dehydrogenase (NADP+) (EC 1.5.1.5) HSERO_RS07295 N.D.
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) No genes
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) HSERO_RS06140 N.D.
Serine--glyoxylate aminotransferase (EC 2.6.1.45) No genes
Serine--pyruvate aminotransferase (EC 2.6.1.51) No genes
Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase No genes
Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) HSERO_RS14905 N.D.
Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) HSERO_RS14900 N.D.
Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) HSERO_RS03285 -1.2
Succinyl-CoA ligase [ADP-forming] beta chain (EC 6.2.1.5) HSERO_RS03280 N.D.
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5) HSERO_RS23190 N.D.
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) HSERO_RS23185 -1.1
crotonyl-CoA reductase No genes
cytosolic long-chain acyl-CoA thioester hydrolase family protein HSERO_RS13415 -0.1
decarboxylase No genes
isobutyryl-CoA dehydrogenase No genes
low-specificity D-threonine aldolase HSERO_RS05720 -0.3
polyhydroxyalkanoate synthesis repressor PhaR No genes
putative glycerate kinase No genes
putative isobutyryl-CoA mutase, chain B No genes

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