KEGG   PATHWAY: pub00020
Entry
pub00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Pelagibacter ubique
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
pub00020  Citrate cycle (TCA cycle)
pub00020

Module
pub_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pub00020]
pub_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pub00020]
pub_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pub00020]
pub_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pub00020]
Other DBs
GO: 0006099
Organism
Candidatus Pelagibacter ubique [GN:pub]
Gene
SAR11_1156  prpC; citrate (si)-synthase [KO:K01659] [EC:2.3.3.5]
SAR11_1324  acnA; aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
SAR11_0644  icdA; isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
SAR11_0237  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
SAR11_0236  sucB; 2-oxoglutarate dehydrogenase complex E2 component [KO:K00658] [EC:2.3.1.61]
SAR11_0235  pdhD; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
SAR11_0238  sucD; Succinyl-CoA synthetase alpha chain (SCS-alpha) [KO:K01902] [EC:6.2.1.5]
SAR11_0239  sucC; Succinyl-CoA synthetase beta chain (SCS-beta) [KO:K01903] [EC:6.2.1.5]
SAR11_0243  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
SAR11_0242  sdhB; Succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
SAR11_1721  sdhC; Succinate dehydrogenase cytochrome b [KO:K00241]
SAR11_0244  possible membrane portion of succinate dehydrogenase [KO:K00242]
SAR11_0012  fumC; Fumarate hydratase class II (Fumarase C) [KO:K01679] [EC:4.2.1.2]
SAR11_0240  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SAR11_0429  aceE; pyruvate dehydrogenase (lipoamide) e1 component [KO:K00163] [EC:1.2.4.1]
SAR11_0430  aceF; dihydrolipoamide S-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
pub00010  Glycolysis / Gluconeogenesis
pub00053  Ascorbate and aldarate metabolism
pub00061  Fatty acid biosynthesis
pub00071  Fatty acid degradation
pub00190  Oxidative phosphorylation
pub00220  Arginine biosynthesis
pub00250  Alanine, aspartate and glutamate metabolism
pub00280  Valine, leucine and isoleucine degradation
pub00350  Tyrosine metabolism
pub00470  D-Amino acid metabolism
pub00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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