KEGG   PATHWAY: rfv00020
Entry
rfv00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudorhizobium flavum
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
rfv00020  Citrate cycle (TCA cycle)
rfv00020

Module
rfv_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rfv00020]
rfv_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rfv00020]
rfv_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rfv00020]
rfv_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rfv00020]
Other DBs
GO: 0006099
Organism
Pseudorhizobium flavum [GN:rfv]
Gene
RFYW14_01669  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
RFYW14_03432  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
RFYW14_01654  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
RFYW14_03382  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RFYW14_03381  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
RFYW14_01680  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RFYW14_02638  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RFYW14_03378  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RFYW14_03383  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
RFYW14_03384  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
RFYW14_03657  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
RFYW14_03389  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RFYW14_04407  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RFYW14_03388  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RFYW14_04406  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RFYW14_03391  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RFYW14_04405  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RFYW14_03390  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RFYW14_01985  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RFYW14_03385  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RFYW14_04046  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
RFYW14_03506  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
RFYW14_03749  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
RFYW14_01675  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
RFYW14_01676  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
RFYW14_01677  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [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
rfv00010  Glycolysis / Gluconeogenesis
rfv00053  Ascorbate and aldarate metabolism
rfv00061  Fatty acid biosynthesis
rfv00071  Fatty acid degradation
rfv00190  Oxidative phosphorylation
rfv00220  Arginine biosynthesis
rfv00250  Alanine, aspartate and glutamate metabolism
rfv00280  Valine, leucine and isoleucine degradation
rfv00350  Tyrosine metabolism
rfv00470  D-Amino acid metabolism
rfv00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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