KEGG   PATHWAY: geb00020
Entry
geb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geobacter sp. M18
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
geb00020  Citrate cycle (TCA cycle)
geb00020

Module
geb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:geb00020]
geb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:geb00020]
geb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:geb00020]
geb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:geb00020]
geb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:geb00020]
Other DBs
GO: 0006099
Organism
Geobacter sp. M18 [GN:geb]
Gene
GM18_1484  Citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
GM18_1971  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
GM18_2068  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
GM18_1155  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
GM18_2788  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
GM18_3647  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
GM18_3646  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
GM18_3645  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
GM18_2785  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
GM18_3059  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
GM18_2784  thiamine pyrophosphate TPP-binding domain-containing protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
GM18_3058  thiamine pyrophosphate TPP-binding domain-containing protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
GM18_2783  pyruvate/ketoisovalerate oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
GM18_3057  Pyruvate/ketoisovalerate oxidoreductase, catalytic domain protein [KO:K00177] [EC:1.2.7.3]
GM18_2786  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00176] [EC:1.2.7.3]
GM18_3060  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00176] [EC:1.2.7.3]
GM18_0287  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
GM18_3274  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
GM18_0288  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
GM18_3275  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
GM18_3410  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GM18_3409  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GM18_3411  succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family [KO:K00241]
GM18_3822  flavocytochrome c [KO:K26318] [EC:1.3.2.4]
GM18_0779  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01676] [EC:4.2.1.2]
GM18_3827  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01676] [EC:4.2.1.2]
GM18_2787  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
GM18_0310  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
GM18_3619  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
GM18_3618  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
GM18_1972  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
GM18_3920  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
GM18_3919  Transketolase central region [KO:K00162] [EC:1.2.4.1]
GM18_1973  Transketolase central region [KO:K00162] [EC:1.2.4.1]
GM18_1974  catalytic domain-containing protein of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
GM18_3918  catalytic domain-containing protein of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
GM18_0172  pyruvate ferredoxin/flavodoxin oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
GM18_3272  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
geb00010  Glycolysis / Gluconeogenesis
geb00053  Ascorbate and aldarate metabolism
geb00061  Fatty acid biosynthesis
geb00071  Fatty acid degradation
geb00190  Oxidative phosphorylation
geb00220  Arginine biosynthesis
geb00250  Alanine, aspartate and glutamate metabolism
geb00280  Valine, leucine and isoleucine degradation
geb00350  Tyrosine metabolism
geb00470  D-Amino acid metabolism
geb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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