KEGG   PATHWAY: kdi00020
Entry
kdi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Dokdonia sp. 4H-3-7-5
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
kdi00020  Citrate cycle (TCA cycle)
kdi00020

Module
kdi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:kdi00020]
kdi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:kdi00020]
kdi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:kdi00020]
kdi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:kdi00020]
kdi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:kdi00020]
Other DBs
GO: 0006099
Organism
Dokdonia sp. 4H-3-7-5 [GN:kdi]
Gene
Krodi_1863  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Krodi_2431  aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
Krodi_2132  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Krodi_0857  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
Krodi_0856  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Krodi_0404  catalytic domain-containing protein of components of various dehydrogenase complexes [KO:K00658] [EC:2.3.1.61]
Krodi_2977  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Krodi_0286  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Krodi_2549  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Krodi_2080  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Krodi_1514  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Krodi_1515  ferredoxin [KO:K00240] [EC:1.3.5.1]
Krodi_1513  succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family [KO:K00241]
Krodi_2303  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Krodi_1926  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Krodi_2704  malate/quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Krodi_2829  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Krodi_1376  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Krodi_0576  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Krodi_0772  Transketolase central region [KO:K00162] [EC:1.2.4.1]
Krodi_0575  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
kdi00010  Glycolysis / Gluconeogenesis
kdi00053  Ascorbate and aldarate metabolism
kdi00061  Fatty acid biosynthesis
kdi00071  Fatty acid degradation
kdi00190  Oxidative phosphorylation
kdi00220  Arginine biosynthesis
kdi00250  Alanine, aspartate and glutamate metabolism
kdi00280  Valine, leucine and isoleucine degradation
kdi00350  Tyrosine metabolism
kdi00470  D-Amino acid metabolism
kdi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system