KEGG   PATHWAY: ddc00020
Entry
ddc00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Dickeya parazeae
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
ddc00020  Citrate cycle (TCA cycle)
ddc00020

Module
ddc_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ddc00020]
ddc_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ddc00020]
ddc_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ddc00020]
ddc_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ddc00020]
ddc_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ddc00020]
Other DBs
GO: 0006099
Organism
Dickeya parazeae [GN:ddc]
Gene
Dd586_1182  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Dd586_1681  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
Dd586_3503  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Dd586_2559  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Dd586_1934  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Dd586_1187  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
Dd586_1188  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Dd586_3506  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Dd586_1190  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Dd586_1189  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Dd586_1185  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Dd586_1186  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Dd586_1183  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Dd586_1184  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Dd586_3677  fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
Dd586_3678  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
Dd586_3679  fumarate reductase subunit C [KO:K00246]
Dd586_3680  fumarate reductase D subunit [KO:K00247]
Dd586_0828  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01676] [EC:4.2.1.2]
Dd586_2084  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Dd586_0581  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Dd586_2803  malate/quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Dd586_3814  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Dd586_3508  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Dd586_3507  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
Dd586_0696  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
ddc00010  Glycolysis / Gluconeogenesis
ddc00053  Ascorbate and aldarate metabolism
ddc00061  Fatty acid biosynthesis
ddc00071  Fatty acid degradation
ddc00190  Oxidative phosphorylation
ddc00220  Arginine biosynthesis
ddc00250  Alanine, aspartate and glutamate metabolism
ddc00280  Valine, leucine and isoleucine degradation
ddc00350  Tyrosine metabolism
ddc00470  D-Amino acid metabolism
ddc00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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