KEGG   PATHWAY: daq00020
Entry
daq00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Dickeya aquatica
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
daq00020  Citrate cycle (TCA cycle)
daq00020

Module
daq_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:daq00020]
daq_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:daq00020]
daq_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:daq00020]
daq_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:daq00020]
daq_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:daq00020]
Other DBs
GO: 0006099
Organism
Dickeya aquatica [GN:daq]
Gene
DAQ1742_02989  gltA; Citrate synthase (si) [KO:K01647] [EC:2.3.3.1]
DAQ1742_03785  acnB; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DAQ1742_01536  Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DAQ1742_02485  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
DAQ1742_02984  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DAQ1742_02983  sucB; Dihydrolipoamide succinyltransferase component (E2) of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
DAQ1742_03789  lpd; Dihydrolipoamide dehydrogenase / Dihydrolipoamide dehydrogenase of pyruvate dehydrogenase complex [KO:K00382] [EC:1.8.1.4]
DAQ1742_02981  sucD; Succinyl-CoA ligase [ADP-forming] alpha chain [KO:K01902] [EC:6.2.1.5]
DAQ1742_02982  sucC; Succinyl-CoA ligase [ADP-forming] beta chain [KO:K01903] [EC:6.2.1.5]
DAQ1742_02986  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DAQ1742_02985  sdhB; Succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
DAQ1742_02988  sdhC; Succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
DAQ1742_02987  sdhD; Succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
DAQ1742_03982  frdA; Succinate dehydrogenase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
DAQ1742_03983  frdB; Succinate dehydrogenase iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
DAQ1742_03984  frdC; Fumarate reductase subunit C [KO:K00246]
DAQ1742_03985  frdD; Fumarate reductase subunit D [KO:K00247]
DAQ1742_00878  fumA; Fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
DAQ1742_00676  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DAQ1742_04140  pck; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
DAQ1742_03791  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
DAQ1742_03790  aceF; Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
DAQ1742_00787  nifJ; Pyruvate-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
daq00010  Glycolysis / Gluconeogenesis
daq00053  Ascorbate and aldarate metabolism
daq00061  Fatty acid biosynthesis
daq00071  Fatty acid degradation
daq00190  Oxidative phosphorylation
daq00220  Arginine biosynthesis
daq00250  Alanine, aspartate and glutamate metabolism
daq00280  Valine, leucine and isoleucine degradation
daq00350  Tyrosine metabolism
daq00470  D-Amino acid metabolism
daq00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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