KEGG   PATHWAY: pgd00020
Entry
pgd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Phaeobacter gallaeciensis DSM 26640
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
pgd00020  Citrate cycle (TCA cycle)
pgd00020

Module
pgd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pgd00020]
pgd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pgd00020]
pgd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pgd00020]
pgd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pgd00020]
pgd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pgd00020]
Other DBs
GO: 0006099
Organism
Phaeobacter gallaeciensis DSM 26640 [GN:pgd]
Gene
Gal_00542  Citrate synthase [KO:K01647] [EC:2.3.3.1]
Gal_01646  citrate synthase [KO:K01647] [EC:2.3.3.1]
Gal_01510  aconitase [KO:K01681] [EC:4.2.1.3]
Gal_00590  isocitrate dehydrogenase, NADP-dependent, monomeric type [KO:K00031] [EC:1.1.1.42]
Gal_03143  2-oxoglutarate dehydrogenase, E1 component [KO:K00164] [EC:1.2.4.2]
Gal_03144  2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
Gal_01585  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gal_03147  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gal_04321  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gal_04257  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Gal_03141  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Gal_03139  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
Gal_03126  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Gal_03123  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Gal_03128  succinate dehydrogenase subunit C [KO:K00241]
Gal_03127  succinate dehydrogenase subunit D [KO:K00242]
Gal_02051  fumarase, class II [KO:K01679] [EC:4.2.1.2]
Gal_03137  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
Gal_02549  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Gal_00248  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Gal_01683  Pyruvate dehydrogenase complex, dehydrogenase (E1) component [KO:K00163] [EC:1.2.4.1]
Gal_03287  Pyruvate dehydrogenase complex, dehydrogenase (E1) component [KO:K00163] [EC:1.2.4.1]
Gal_01569  pyruvate dehydrogenase E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Gal_01568  Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase component, eukaryotic type [KO:K00162] [EC:1.2.4.1]
Gal_01567  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form [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
pgd00010  Glycolysis / Gluconeogenesis
pgd00053  Ascorbate and aldarate metabolism
pgd00061  Fatty acid biosynthesis
pgd00071  Fatty acid degradation
pgd00190  Oxidative phosphorylation
pgd00220  Arginine biosynthesis
pgd00250  Alanine, aspartate and glutamate metabolism
pgd00280  Valine, leucine and isoleucine degradation
pgd00350  Tyrosine metabolism
pgd00470  D-Amino acid metabolism
pgd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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