SEED Subsystem: Serine-glyoxylate cycle in Pseudomonas putida KT2440

Experiments:

Role Gene Name 3-methyl-3-buten-1-ol 0.1 vol% (C)  
⨯
3-ketoacyl-CoA thiolase (EC 2.3.1.16) PP_3355 -0.1
5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) PP_4638 -0.0
  PP_4977 -1.0
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) PP_5203 -0.8
Acetoacetyl-CoA reductase (EC 1.1.1.36) No genes
Acetyl-CoA acetyltransferase (EC 2.3.1.9) PP_4636 -0.1
Aconitate hydratase (EC 4.2.1.3) PP_2112 -0.1
Citrate synthase (EC 2.3.3.1) No genes
Citrate synthase (si) (EC 2.3.3.1) PP_4194 N.D.
Enolase (EC 4.2.1.11) PP_1612 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) PP_0897 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) PP_1212 N.D.
  PP_2381 N.D.
  PP_3134 +0.2
  PP_3178 -0.2
  PP_3962 +0.2
Isocitrate lyase (EC 4.1.3.1) PP_4116 -5.9
Malate dehydrogenase (EC 1.1.1.37) PP_0654 +0.2
  PP_2835 +0.0
Malate synthase-related protein No genes
Malyl-CoA lyase (EC 4.1.3.24) No genes
Methenyltetrahydrofolate cyclohydrolase (EC 3.5.4.9) PP_1945 +0.2
  PP_2265 N.D.
Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) PP_4067 -6.0
Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) PP_4065 -6.3
Methylene tetrahydromethanopterin dehydrogenase (EC 1.5.99.9) No genes
Methylenetetrahydrofolate dehydrogenase (NADP+) (EC 1.5.1.5) PP_1945 +0.2
  PP_2265 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) PP_0322 -0.0
  PP_0671 N.D.
  PP_0672 +0.1
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) PP_4191 N.D.
Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) PP_4190 N.D.
Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) PP_4185 N.D.
Succinyl-CoA ligase [ADP-forming] beta chain (EC 6.2.1.5) PP_4186 N.D.
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5) PP_3122 -2.5
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) PP_3123 -2.1
crotonyl-CoA reductase No genes
cytosolic long-chain acyl-CoA thioester hydrolase family protein PP_1466 -0.4
  PP_4975 +0.2
  PP_5331 -0.4
  PP_5356 +0.3
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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