KEGG   PATHWAY: nca00020
Entry
nca00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nocardioides sp. JS614
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
nca00020  Citrate cycle (TCA cycle)
nca00020

Module
nca_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nca00020]
nca_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nca00020]
nca_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nca00020]
nca_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nca00020]
nca_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nca00020]
Other DBs
GO: 0006099
Organism
Nocardioides sp. JS614 [GN:nca]
Gene
Noca_0733  citrate synthase [KO:K01647] [EC:2.3.3.1]
Noca_0888  citrate synthase [KO:K01647] [EC:2.3.3.1]
Noca_2876  aconitase [KO:K01681] [EC:4.2.1.3]
Noca_3575  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Noca_1737  2-oxoglutarate dehydrogenase E1 component [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
Noca_3518  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Noca_2304  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Noca_0537  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Noca_0536  thiamine pyrophosphate enzyme domain protein TPP-binding protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Noca_3589  succinyl-CoA synthetase (ADP-forming) alpha subunit [KO:K01902] [EC:6.2.1.5]
Noca_3590  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
Noca_3548  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Noca_3552  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Noca_3547  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
Noca_3553  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
Noca_3551  succinate dehydrogenase subunit C [KO:K00241]
Noca_1061  fumarase [KO:K01676] [EC:4.2.1.2]
Noca_1059  fumarase [KO:K01679] [EC:4.2.1.2]
Noca_3578  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
Noca_3513  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Noca_0190  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Noca_4168  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Noca_4472  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Noca_4858  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Noca_1993  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Noca_2105  2-oxo-acid dehydrogenase E1 component homodimeric type [KO:K00163] [EC:1.2.4.1]
Noca_4453  catalytic domain of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
Noca_2303  2-oxoglutarate dehydrogenase E2 component [KO:K00627] [EC:2.3.1.12]
Noca_2360  pyruvate ferredoxin oxidoreductase, alpha subunit [KO:K00169] [EC:1.2.7.1]
Noca_2359  pyruvate ferredoxin oxidoreductase, beta subunit [KO:K00170] [EC:1.2.7.1]
Noca_2361  pyruvate ferredoxin oxidoreductase, gamma subunit [KO:K00172] [EC:1.2.7.1]
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
nca00010  Glycolysis / Gluconeogenesis
nca00053  Ascorbate and aldarate metabolism
nca00061  Fatty acid biosynthesis
nca00071  Fatty acid degradation
nca00190  Oxidative phosphorylation
nca00220  Arginine biosynthesis
nca00250  Alanine, aspartate and glutamate metabolism
nca00280  Valine, leucine and isoleucine degradation
nca00350  Tyrosine metabolism
nca00470  D-Amino acid metabolism
nca00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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