KEGG   PATHWAY: gbz00020
Entry
gbz00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geobacter benzoatilyticus
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
gbz00020  Citrate cycle (TCA cycle)
gbz00020

Module
gbz_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gbz00020]
gbz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gbz00020]
gbz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gbz00020]
gbz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gbz00020]
gbz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gbz00020]
Other DBs
GO: 0006099
Organism
Geobacter benzoatilyticus [GN:gbz]
Gene
JZM60_10045  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
JZM60_09660  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
JZM60_13480  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
JZM60_12060  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
JZM60_14975  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
JZM60_09645  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
JZM60_09650  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
JZM60_09655  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JZM60_10445  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JZM60_11825  3-methyl-2-oxobutanoate dehydrogenase subunit VorB [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JZM60_12075  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JZM60_11830  2-oxoglutarate oxidoreductase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JZM60_12080  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JZM60_11835  2-oxoacid:acceptor oxidoreductase family protein [KO:K00177] [EC:1.2.7.3]
JZM60_12085  2-oxoacid:acceptor oxidoreductase family protein [KO:K00177] [EC:1.2.7.3]
JZM60_11820  4Fe-4S binding protein [KO:K00176] [EC:1.2.7.3]
JZM60_12070  4Fe-4S binding protein [KO:K00176] [EC:1.2.7.3]
JZM60_09280  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
JZM60_09275  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
JZM60_16085  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
JZM60_16080  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
JZM60_16090  succinate dehydrogenase cytochrome b subunit [KO:K00241]
JZM60_01105  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
JZM60_12065  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
JZM60_10180  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
JZM60_03745  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
JZM60_01455  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
JZM60_00845  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JZM60_09675  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JZM60_00850  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
JZM60_09680  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
JZM60_00855  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
JZM60_09685  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
JZM60_06255  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
gbz00010  Glycolysis / Gluconeogenesis
gbz00053  Ascorbate and aldarate metabolism
gbz00061  Fatty acid biosynthesis
gbz00071  Fatty acid degradation
gbz00190  Oxidative phosphorylation
gbz00220  Arginine biosynthesis
gbz00250  Alanine, aspartate and glutamate metabolism
gbz00280  Valine, leucine and isoleucine degradation
gbz00350  Tyrosine metabolism
gbz00470  D-Amino acid metabolism
gbz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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