KEGG   PATHWAY: coy00020
Entry
coy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Chitinophaga oryzae
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
coy00020  Citrate cycle (TCA cycle)
coy00020

Module
coy_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:coy00020]
coy_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:coy00020]
coy_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:coy00020]
coy_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:coy00020]
coy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:coy00020]
Other DBs
GO: 0006099
Organism
Chitinophaga oryzae [GN:coy]
Gene
HF329_30235  citrate (Si)-synthase, eukaryotic [KO:K01647] [EC:2.3.3.1]
HF329_18280  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
HF329_32275  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
HF329_31425  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HF329_31430  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HF329_30530  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HF329_30535  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HF329_33485  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
HF329_10515  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HF329_16300  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HF329_23105  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
HF329_23890  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
HF329_22880  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HF329_31380  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HF329_03060  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
HF329_19095  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HF329_24800  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HF329_19090  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HF329_24795  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HF329_19100  succinate dehydrogenase cytochrome b subunit [KO:K00241]
HF329_24805  succinate dehydrogenase cytochrome b subunit [KO:K00241]
HF329_28005  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HF329_20675  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HF329_29125  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
HF329_07980  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
HF329_30160  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
HF329_08060  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
HF329_32660  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
HF329_29485  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
coy00010  Glycolysis / Gluconeogenesis
coy00053  Ascorbate and aldarate metabolism
coy00061  Fatty acid biosynthesis
coy00071  Fatty acid degradation
coy00190  Oxidative phosphorylation
coy00220  Arginine biosynthesis
coy00250  Alanine, aspartate and glutamate metabolism
coy00280  Valine, leucine and isoleucine degradation
coy00350  Tyrosine metabolism
coy00470  D-Amino acid metabolism
coy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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