KEGG   PATHWAY: gil00020
Entry
gil00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Gilvimarinus sp. DA14
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
gil00020  Citrate cycle (TCA cycle)
gil00020

Module
gil_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gil00020]
gil_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gil00020]
gil_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gil00020]
gil_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gil00020]
Other DBs
GO: 0006099
Organism
Gilvimarinus sp. DA14 [GN:gil]
Gene
NHM04_00640  citrate synthase [KO:K01647] [EC:2.3.3.1]
NHM04_10385  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
NHM04_02775  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
NHM04_13695  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
NHM04_00665  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
NHM04_00670  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
NHM04_00675  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NHM04_00685  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
NHM04_00680  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
NHM04_00655  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NHM04_00660  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
NHM04_00645  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
NHM04_00650  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
NHM04_16430  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
NHM04_02100  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
NHM04_17140  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NHM04_03580  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
NHM04_03575  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
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
gil00010  Glycolysis / Gluconeogenesis
gil00053  Ascorbate and aldarate metabolism
gil00061  Fatty acid biosynthesis
gil00071  Fatty acid degradation
gil00190  Oxidative phosphorylation
gil00220  Arginine biosynthesis
gil00250  Alanine, aspartate and glutamate metabolism
gil00280  Valine, leucine and isoleucine degradation
gil00350  Tyrosine metabolism
gil00470  D-Amino acid metabolism
gil00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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