KEGG   PATHWAY: pabs00020
Entry
pabs00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Polycladomyces abyssicola
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
pabs00020  Citrate cycle (TCA cycle)
pabs00020

Module
pabs_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pabs00020]
pabs_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pabs00020]
pabs_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pabs00020]
pabs_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pabs00020]
pabs_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pabs00020]
Other DBs
GO: 0006099
Organism
Polycladomyces abyssicola [GN:pabs]
Gene
JIR001_24260  hypothetical protein [KO:K01647] [EC:2.3.3.1]
JIR001_08420  citZ; citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
JIR001_05010  citB; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
JIR001_08430  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
JIR001_24710  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
JIR001_14040  bfmBC; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JIR001_04620  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JIR001_17860  porA; pyruvate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JIR001_20880  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JIR001_17850  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JIR001_20870  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JIR001_18680  sucD; succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
JIR001_18690  sucC; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
JIR001_09560  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
JIR001_09570  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
JIR001_09550  sdhC; succinate dehydrogenase cytochrome B558 [KO:K00241]
JIR001_09610  fumA; fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
JIR001_08440  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
JIR001_04520  pckA1; phosphoenolpyruvate carboxykinase [ATP] 1 [KO:K01610] [EC:4.1.1.49]
JIR001_04590  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JIR001_04600  pdhB; pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
JIR001_04610  pdhC; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
JIR001_05350  dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [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
pabs00010  Glycolysis / Gluconeogenesis
pabs00053  Ascorbate and aldarate metabolism
pabs00061  Fatty acid biosynthesis
pabs00062  Fatty acid elongation
pabs00071  Fatty acid degradation
pabs00190  Oxidative phosphorylation
pabs00220  Arginine biosynthesis
pabs00250  Alanine, aspartate and glutamate metabolism
pabs00280  Valine, leucine and isoleucine degradation
pabs00350  Tyrosine metabolism
pabs00470  D-Amino acid metabolism
pabs00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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