KEGG   PATHWAY: rufi00020
Entry
rufi00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Ruficoccus sp. ZRK36
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
rufi00020  Citrate cycle (TCA cycle)
rufi00020

Module
rufi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rufi00020]
rufi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rufi00020]
rufi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rufi00020]
rufi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rufi00020]
Other DBs
GO: 0006099
Organism
Ruficoccus sp. ZRK36 [GN:rufi]
Gene
K0V07_10150  citrate synthase [KO:K01647] [EC:2.3.3.1]
K0V07_02510  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
K0V07_11140  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
K0V07_14980  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
K0V07_14985  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
K0V07_14990  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
K0V07_09405  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
K0V07_05480  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
K0V07_05485  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
K0V07_10495  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
K0V07_10500  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
K0V07_10490  succinate dehydrogenase cytochrome b subunit [KO:K00241]
K0V07_07685  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
K0V07_10605  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
K0V07_16180  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
K0V07_15845  pyruvate carboxylase subunit B [KO:K01960] [EC:6.4.1.1]
K0V07_10315  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
K0V07_03475  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
K0V07_03480  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
K0V07_03485  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
K0V07_13850  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
K0V07_00715  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
rufi00010  Glycolysis / Gluconeogenesis
rufi00053  Ascorbate and aldarate metabolism
rufi00061  Fatty acid biosynthesis
rufi00190  Oxidative phosphorylation
rufi00220  Arginine biosynthesis
rufi00250  Alanine, aspartate and glutamate metabolism
rufi00280  Valine, leucine and isoleucine degradation
rufi00350  Tyrosine metabolism
rufi00470  D-Amino acid metabolism
rufi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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