KEGG   PATHWAY: gme00020
Entry
gme00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geobacter metallireducens
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
gme00020  Citrate cycle (TCA cycle)
gme00020

Module
gme_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gme00020]
gme_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gme00020]
gme_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gme00020]
gme_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gme00020]
gme_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gme00020]
Other DBs
GO: 0006099
Organism
Geobacter metallireducens [GN:gme]
Gene
Gmet_0308  sdhA; succinate dehydrogenase/fumarate reductase, type E, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Gmet_0309  sdhB; succinate dehydrogenase/fumarate reductase, type E, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Gmet_0310  sdhE; succinate dehydrogenase/fumarate reductase, type E, CCG domain pair subunit [KO:K00241]
Gmet_0729  sucC-1; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Gmet_0730  sucD-1; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Gmet_0816  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Gmet_1016  acnA; aconitate hydratase 1 [KO:K27802]
Gmet_1124  [KO:K01647] [EC:2.3.3.1]
Gmet_1306  vorD; 2-oxoacid:ferredoxin oxidoreductase, ferredoxin subunit [KO:K00176] [EC:1.2.7.3]
Gmet_1307  vorA; 2-oxoacid:ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Gmet_1308  vorB; 2-oxoacid:ferredoxin oxidoreductase, thiamin diphosphate-binding subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Gmet_1309  vorC; 2-oxoacid:ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Gmet_1359  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Gmet_1360  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Gmet_1361  korD; 2-oxoglutarate:ferredoxin oxidoreductase, ferredoxin subunit [KO:K00176] [EC:1.2.7.3]
Gmet_1362  korA; 2-oxoglutarate:ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Gmet_1363  korB; 2-oxoglutarate:ferredoxin oxidoreductase, thiamin diphosphate-binding subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Gmet_1364  korC; 2-oxoglutarate:ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Gmet_1896  lpdA-2; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gmet_1912  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Gmet_2068  sucD-2; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Gmet_2069  sucC-2; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Gmet_2260  sucD-3; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Gmet_2261  sucC-3; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Gmet_2395  frdB; succinate dehydrogenase/fumarate reductase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Gmet_2396  frdA; succinate dehydrogenase/fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Gmet_2397  frdC; succinate dehydrogenase/fumarate reductase, cytochrome b558 subunit [KO:K00241]
Gmet_2509  bkdA; branched-chain 2-oxoacid dehydrogenase complex, E1 protein, alpha subunit, putative [KO:K00161] [EC:1.2.4.1]
Gmet_2510  bkdB; branched-chain 2-oxoacid dehydrogenase complex, E1 protein, beta subunit, putative [KO:K00162] [EC:1.2.4.1]
Gmet_2511  bkdF; branched-chain 2-oxoacid dehydrogenase complex, E2 protein, dihydrolipoamide acyltransferase, putative [KO:K00627] [EC:2.3.1.12]
Gmet_2570  fumB; fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
Gmet_2638  pckA; phosphoenolpyruvate carboxykinase, GTP-dependent [KO:K01596] [EC:4.1.1.32]
Gmet_2689  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
Gmet_2752  aceF; pyruvate dehydrogenase complex, E2 protein, dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
Gmet_2753  pdhB; pyruvate dehydrogenase complex, E1 protein, beta subunit [KO:K00162] [EC:1.2.4.1]
Gmet_2760  pdhA; pyruvate dehydrogenase complex, E1 protein, alpha subunit [KO:K00161] [EC:1.2.4.1]
Gmet_2764  lpdA-1; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gmet_2766  sucB; 2-oxoglutarate dehydrogenase, E2 protein, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Gmet_2769  sucA; 2-oxoglutarate dehydrogenase, E1 protein [KO:K00164] [EC:1.2.4.2]
Gmet_3169  [KO:K01610] [EC:4.1.1.49]
Gmet_3419  por; 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
gme00010  Glycolysis / Gluconeogenesis
gme00053  Ascorbate and aldarate metabolism
gme00061  Fatty acid biosynthesis
gme00071  Fatty acid degradation
gme00190  Oxidative phosphorylation
gme00220  Arginine biosynthesis
gme00250  Alanine, aspartate and glutamate metabolism
gme00280  Valine, leucine and isoleucine degradation
gme00350  Tyrosine metabolism
gme00470  D-Amino acid metabolism
gme00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

DBGET integrated database retrieval system