KEGG   PATHWAY: rid00020
Entry
rid00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Roseovarius indicus
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
rid00020  Citrate cycle (TCA cycle)
rid00020

Module
rid_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rid00020]
rid_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rid00020]
rid_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rid00020]
rid_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rid00020]
rid_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rid00020]
Other DBs
GO: 0006099
Organism
Roseovarius indicus [GN:rid]
Gene
RIdsm_02460  gltA_2; Citrate synthase [KO:K01647] [EC:2.3.3.1]
RIdsm_05483  citA_2; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
RIdsm_05495  citA_3; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
RIdsm_00912  citA_1; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
RIdsm_00128  acnA; Aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
RIdsm_03838  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
RIdsm_04548  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RIdsm_04549  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
RIdsm_04554  lpd3; Dihydrolipoyl dehydrogenase 3 [KO:K00382] [EC:1.8.1.4]
RIdsm_00823  lpdV; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RIdsm_02985  lpd_1; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RIdsm_03102  lpd_2; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RIdsm_04545  sucD_2; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
RIdsm_04543  sucC_2; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
RIdsm_04531  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RIdsm_04529  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RIdsm_04533  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
RIdsm_04532  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RIdsm_02924  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
RIdsm_04541  mdh_3; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RIdsm_00298  cfiB; 2-oxoglutarate carboxylase small subunit [KO:K01958] [EC:6.4.1.1]
RIdsm_00190  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
RIdsm_01063  pdhA; Pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
RIdsm_02289  acoA; Acetoin:2,6-dichlorophenolindophenol oxidoreductase subunit alpha [KO:K00161] [EC:1.2.4.1]
RIdsm_02288  bfmBAB; 2-oxoisovalerate dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
RIdsm_01062  bkdA2_2; 2-oxoisovalerate dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
RIdsm_02287  pdhC_2; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
RIdsm_01061  pdhC_1; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
rid00010  Glycolysis / Gluconeogenesis
rid00053  Ascorbate and aldarate metabolism
rid00061  Fatty acid biosynthesis
rid00071  Fatty acid degradation
rid00190  Oxidative phosphorylation
rid00220  Arginine biosynthesis
rid00250  Alanine, aspartate and glutamate metabolism
rid00280  Valine, leucine and isoleucine degradation
rid00350  Tyrosine metabolism
rid00470  D-Amino acid metabolism
rid00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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