KEGG   PATHWAY: scor00020
Entry
scor00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Sulfidibacter corallicola
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
scor00020  Citrate cycle (TCA cycle)
scor00020

Module
scor_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:scor00020]
scor_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:scor00020]
scor_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:scor00020]
scor_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:scor00020]
scor_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:scor00020]
Other DBs
GO: 0006099
Organism
Sulfidibacter corallicola [GN:scor]
Gene
J3U87_21010  citrate synthase [KO:K01647] [EC:2.3.3.1]
J3U87_00295  citrate synthase/methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
J3U87_00300  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
J3U87_19540  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
J3U87_22355  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
J3U87_11420  isocitrate/isopropylmalate dehydrogenase family protein [KO:K00030] [EC:1.1.1.41]
J3U87_29955  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
J3U87_01640  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
J3U87_01635  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
J3U87_33480  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
J3U87_01630  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
J3U87_04315  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
J3U87_09565  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
J3U87_11545  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
J3U87_11550  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
J3U87_30400  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
J3U87_30395  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
J3U87_19390  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
J3U87_19395  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
J3U87_19385  succinate dehydrogenase cytochrome b subunit [KO:K00241]
J3U87_08660  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
J3U87_32190  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
J3U87_29925  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
J3U87_24565  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
J3U87_33490  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
J3U87_14430  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
J3U87_14435  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
J3U87_33485  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
J3U87_12165  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
J3U87_14440  2-oxo acid dehydrogenase subunit E2 [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
scor00010  Glycolysis / Gluconeogenesis
scor00053  Ascorbate and aldarate metabolism
scor00061  Fatty acid biosynthesis
scor00071  Fatty acid degradation
scor00190  Oxidative phosphorylation
scor00220  Arginine biosynthesis
scor00250  Alanine, aspartate and glutamate metabolism
scor00280  Valine, leucine and isoleucine degradation
scor00350  Tyrosine metabolism
scor00470  D-Amino acid metabolism
scor00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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