KEGG   PATHWAY: agf00020
Entry
agf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Agromyces protaetiae
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
agf00020  Citrate cycle (TCA cycle)
agf00020

Module
agf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:agf00020]
agf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:agf00020]
agf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:agf00020]
Other DBs
GO: 0006099
Organism
Agromyces protaetiae [GN:agf]
Gene
ET445_09690  citrate synthase [KO:K01647] [EC:2.3.3.1]
ET445_07690  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
ET445_15525  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
ET445_12770  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
ET445_05260  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
ET445_07575  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
ET445_07570  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
ET445_05345  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
ET445_16085  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
ET445_00760  FAD-binding protein [KO:K00239] [EC:1.3.5.1]
ET445_05350  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
ET445_16090  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
ET445_05340  succinate dehydrogenase cytochrome b subunit [KO:K00241]
ET445_16075  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
ET445_16080  succinate dehydrogenase [KO:K00242]
ET445_09210  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
ET445_06485  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
ET445_16675  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
ET445_13500  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
ET445_16215  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
ET445_12885  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
ET445_12775  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
agf00010  Glycolysis / Gluconeogenesis
agf00053  Ascorbate and aldarate metabolism
agf00061  Fatty acid biosynthesis
agf00062  Fatty acid elongation
agf00071  Fatty acid degradation
agf00190  Oxidative phosphorylation
agf00220  Arginine biosynthesis
agf00250  Alanine, aspartate and glutamate metabolism
agf00280  Valine, leucine and isoleucine degradation
agf00350  Tyrosine metabolism
agf00470  D-Amino acid metabolism
agf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system