KEGG   PATHWAY: rfl00020
Entry
rfl00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Roseomonas fluvialis
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
rfl00020  Citrate cycle (TCA cycle)
rfl00020

Module
rfl_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rfl00020]
rfl_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rfl00020]
rfl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rfl00020]
rfl_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rfl00020]
rfl_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rfl00020]
Other DBs
GO: 0006099
Organism
Roseomonas fluvialis [GN:rfl]
Gene
Rmf_11710  citrate synthase [KO:K01647] [EC:2.3.3.1]
Rmf_30130  citrate synthase [KO:K01647] [EC:2.3.3.1]
Rmf_06120  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Rmf_29220  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
Rmf_45800  sucA; 2-oxoglutarate dehydrogenase subunit E1 [KO:K00164] [EC:1.2.4.2]
Rmf_45810  sucB; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
Rmf_32170  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Rmf_44260  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Rmf_25660  ferredoxin oxidoreductase [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Rmf_25650  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Rmf_45790  succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
Rmf_45780  sucC; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
Rmf_08750  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Rmf_08740  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
Rmf_08770  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Rmf_08760  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Rmf_30600  sdhA; fumarate reductase [KO:K00244] [EC:1.3.5.1]
Rmf_30520  frdB; fumarate reductase [KO:K00245] [EC:1.3.5.1]
Rmf_30530  hypothetical protein [KO:K00246]
Rmf_30540  succinate dehydrogenase, cytochrome b556 subunit [KO:K00247]
Rmf_10690  fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
Rmf_06300  fumA; fumarate hydratase [KO:K01677] [EC:4.2.1.2]
Rmf_06290  fumB; fumarate hydratase subunit beta [KO:K01678] [EC:4.2.1.2]
Rmf_10620  fumC1; fumarate hydratase class II 1 [KO:K01679] [EC:4.2.1.2]
Rmf_41370  fumC2; fumarate hydratase class II 2 [KO:K01679] [EC:4.2.1.2]
Rmf_45770  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Rmf_05360  pckA; phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
Rmf_23870  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
Rmf_32210  pdhA2; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
Rmf_32200  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
Rmf_32190  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
rfl00010  Glycolysis / Gluconeogenesis
rfl00053  Ascorbate and aldarate metabolism
rfl00061  Fatty acid biosynthesis
rfl00071  Fatty acid degradation
rfl00190  Oxidative phosphorylation
rfl00220  Arginine biosynthesis
rfl00250  Alanine, aspartate and glutamate metabolism
rfl00280  Valine, leucine and isoleucine degradation
rfl00350  Tyrosine metabolism
rfl00470  D-Amino acid metabolism
rfl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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