KEGG   PATHWAY: rbn00020
Entry
rbn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rubrivivax 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
rbn00020  Citrate cycle (TCA cycle)
rbn00020

Module
rbn_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rbn00020]
rbn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rbn00020]
rbn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rbn00020]
rbn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rbn00020]
rbn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rbn00020]
Other DBs
GO: 0006099
Organism
Rubrivivax benzoatilyticus [GN:rbn]
Gene
RBXJA2T_09894  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
RBXJA2T_01525  aconitase [KO:K01681] [EC:4.2.1.3]
RBXJA2T_09939  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
RBXJA2T_10419  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RBXJA2T_19061  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RBXJA2T_08003  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
RBXJA2T_08200  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
RBXJA2T_08013  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
RBXJA2T_09884  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
RBXJA2T_13514  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
RBXJA2T_09879  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
RBXJA2T_13519  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
RBXJA2T_10099  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
RBXJA2T_09909  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
RBXJA2T_09904  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
RBXJA2T_09919  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RBXJA2T_09914  succinate dehydrogenase subunit D [KO:K00242]
RBXJA2T_17047  fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
RBXJA2T_17052  fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
RBXJA2T_17057  fumarate reductase subunit C [KO:K00246]
RBXJA2T_17062  fumarate reductase subunit D [KO:K00247]
RBXJA2T_05893  tartrate/fumarate subfamily Fe-S type hydro-lyase subunit alpha [KO:K01676] [EC:4.2.1.2]
RBXJA2T_09929  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RBXJA2T_17067  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
RBXJA2T_05268  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
RBXJA2T_11241  2-oxoacid dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
RBXJA2T_04798  aceE; pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
RBXJA2T_08195  dihydrolipoamide S-succinyltransferase [KO:K00627] [EC:2.3.1.12]
RBXJA2T_19416  pyruvate flavodoxin/ferredoxin oxidoreductase domain-containing protein [KO:K00169] [EC:1.2.7.1]
RBXJA2T_19421  thiamine pyrophosphate-binding domain-containing protein [KO:K00170] [EC:1.2.7.1]
RBXJA2T_19411  pyruvate/ketoisovalerate oxidoreductase, gamma subunit [KO:K00172] [EC:1.2.7.1]
RBXJA2T_04953  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [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
rbn00010  Glycolysis / Gluconeogenesis
rbn00053  Ascorbate and aldarate metabolism
rbn00061  Fatty acid biosynthesis
rbn00071  Fatty acid degradation
rbn00190  Oxidative phosphorylation
rbn00220  Arginine biosynthesis
rbn00250  Alanine, aspartate and glutamate metabolism
rbn00280  Valine, leucine and isoleucine degradation
rbn00350  Tyrosine metabolism
rbn00470  D-Amino acid metabolism
rbn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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