KEGG   PATHWAY: gef00020
Entry
gef00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geobacter sp. FeAm09
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
gef00020  Citrate cycle (TCA cycle)
gef00020

Module
gef_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gef00020]
gef_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gef00020]
Other DBs
GO: 0006099
Organism
Geobacter sp. FeAm09 [GN:gef]
Gene
FO488_13175  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
FO488_10985  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
FO488_09090  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
FO488_10150  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
FO488_07400  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
FO488_10995  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
FO488_10990  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FO488_10135  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
FO488_10855  vorB; 3-methyl-2-oxobutanoate dehydrogenase subunit VorB [KO:K00174] [EC:1.2.7.3 1.2.7.11]
FO488_10130  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
FO488_10860  2-oxoglutarate oxidoreductase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
FO488_10125  2-oxoacid:ferredoxin oxidoreductase subunit gamma [KO:K00177] [EC:1.2.7.3]
FO488_10865  2-oxoacid:ferredoxin oxidoreductase subunit gamma [KO:K00177] [EC:1.2.7.3]
FO488_10140  4Fe-4S dicluster domain-containing protein [KO:K00176] [EC:1.2.7.3]
FO488_10850  4Fe-4S dicluster domain-containing protein [KO:K00176] [EC:1.2.7.3]
FO488_05175  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
FO488_09880  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
FO488_09875  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
FO488_09885  succinate dehydrogenase cytochrome b subunit [KO:K00241]
FO488_03675  flavocytochrome c [KO:K26318] [EC:1.3.2.4]
FO488_10285  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
FO488_03670  twin-arginine translocation signal domain-containing protein [KO:K01676] [EC:4.2.1.2]
FO488_10145  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
FO488_10645  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
FO488_17655  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
FO488_15185  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
FO488_15180  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
FO488_15175  2-oxo acid dehydrogenase subunit E2 [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
gef00010  Glycolysis / Gluconeogenesis
gef00053  Ascorbate and aldarate metabolism
gef00061  Fatty acid biosynthesis
gef00071  Fatty acid degradation
gef00190  Oxidative phosphorylation
gef00220  Arginine biosynthesis
gef00250  Alanine, aspartate and glutamate metabolism
gef00280  Valine, leucine and isoleucine degradation
gef00350  Tyrosine metabolism
gef00470  D-Amino acid metabolism
gef00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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