KEGG   PATHWAY: serm00020
Entry
serm00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Serratia sp. MYb239
Description
The citrate cycle (TCA cycle, Krebs cycle) is an important aerobic pathway for the final steps of the oxidation of carbohydrates and fatty acids. The cycle starts with acetyl-CoA, the activated form of acetate, derived from glycolysis and pyruvate oxidation for carbohydrates and from beta oxidation of fatty acids. The two-carbon acetyl group in acetyl-CoA is transferred to the four-carbon compound of oxaloacetate to form the six-carbon compound of citrate. In a series of reactions two carbons in citrate are oxidized to CO2 and the reaction pathway supplies NADH for use in the oxidative phosphorylation and other metabolic processes. The pathway also supplies important precursor metabolites including 2-oxoglutarate. At the end of the cycle the remaining four-carbon part is transformed back to oxaloacetate. According to the genome sequence data, many organisms seem to lack genes for the full cycle [MD:M00009], but contain genes for specific segments [MD:M00010 M00011].
Class
Metabolism; Carbohydrate metabolism
Pathway map
serm00020  Citrate cycle (TCA cycle)
serm00020

Module
serm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:serm00020]
serm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:serm00020]
serm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:serm00020]
serm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:serm00020]
serm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:serm00020]
Other DBs
GO: 0006099
Organism
Serratia sp. MYb239 [GN:serm]
Gene
CLM71_05745  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
CLM71_12525  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
CLM71_19540  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
CLM71_09305  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
CLM71_05770  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
CLM71_05775  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
CLM71_19545  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CLM71_05785  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
CLM71_05780  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
CLM71_05760  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CLM71_05765  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CLM71_05750  succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
CLM71_05755  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
CLM71_01645  fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
CLM71_01640  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
CLM71_01635  fumarate reductase subunit FrdC [KO:K00246]
CLM71_01630  fumarate reductase subunit FrdD [KO:K00247]
CLM71_19605  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
CLM71_12310  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
CLM71_01925  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
CLM71_07045  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
CLM71_22310  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
CLM71_09545  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
CLM71_19555  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
CLM71_19550  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
CLM71_11130  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
Compound
C00022  Pyruvate
C00024  Acetyl-CoA
C00026  2-Oxoglutarate
C00036  Oxaloacetate
C00042  Succinate
C00068  Thiamin diphosphate
C00074  Phosphoenolpyruvate
C00091  Succinyl-CoA
C00122  Fumarate
C00149  (S)-Malate
C00158  Citrate
C00311  Isocitrate
C00417  cis-Aconitate
C05125  2-(alpha-Hydroxyethyl)thiamine diphosphate
C05379  Oxalosuccinate
C05381  3-Carboxy-1-hydroxypropyl-ThPP
C15972  Enzyme N6-(lipoyl)lysine
C15973  Enzyme N6-(dihydrolipoyl)lysine
C16254  [Dihydrolipoyllysine-residue succinyltransferase] S-succinyldihydrolipoyllysine
C16255  [Dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine
Reference
  Authors
Nishizuka Y (ed).
  Title
[Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1980)
Reference
  Authors
Nishizuka Y, Seyama Y, Ikai A, Ishimura Y, Kawaguchi A (eds).
  Title
[Cellular Functions and Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1997)
Reference
  Authors
Michal G.
  Title
Biochemical Pathways
  Journal
Wiley (1999)
Related
pathway
serm00010  Glycolysis / Gluconeogenesis
serm00053  Ascorbate and aldarate metabolism
serm00061  Fatty acid biosynthesis
serm00071  Fatty acid degradation
serm00190  Oxidative phosphorylation
serm00220  Arginine biosynthesis
serm00250  Alanine, aspartate and glutamate metabolism
serm00280  Valine, leucine and isoleucine degradation
serm00350  Tyrosine metabolism
serm00470  D-Amino acid metabolism
serm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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