KEGG   PATHWAY: gpd00020
Entry
gpd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Gordonia pseudamarae
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
gpd00020  Citrate cycle (TCA cycle)
gpd00020

Module
gpd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gpd00020]
gpd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gpd00020]
gpd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gpd00020]
gpd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gpd00020]
gpd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gpd00020]
Other DBs
GO: 0006099
Organism
Gordonia pseudamarae [GN:gpd]
Gene
GII33_04830  helix-turn-helix domain-containing protein [KO:K01647] [EC:2.3.3.1]
GII33_04835  citrate synthase/methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
GII33_05250  citrate synthase [KO:K01647] [EC:2.3.3.1]
GII33_05280  citrate synthase [KO:K01647] [EC:2.3.3.1]
GII33_07505  bifunctional 2-methylcitrate synthase/citrate synthase [KO:K01647] [EC:2.3.3.1]
GII33_11460  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
GII33_10760  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GII33_07840  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]
GII33_01665  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GII33_05525  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GII33_05520  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
GII33_10670  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
GII33_07215  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GII33_07210  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GII33_07225  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
GII33_07220  succinate dehydrogenase [KO:K00242]
GII33_06640  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GII33_06625  aspartate ammonia-lyase [KO:K01679] [EC:4.2.1.2]
GII33_09440  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
GII33_07510  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
GII33_01590  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
GII33_14025  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
GII33_13665  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
gpd00010  Glycolysis / Gluconeogenesis
gpd00053  Ascorbate and aldarate metabolism
gpd00061  Fatty acid biosynthesis
gpd00071  Fatty acid degradation
gpd00190  Oxidative phosphorylation
gpd00220  Arginine biosynthesis
gpd00250  Alanine, aspartate and glutamate metabolism
gpd00280  Valine, leucine and isoleucine degradation
gpd00350  Tyrosine metabolism
gpd00470  D-Amino acid metabolism
gpd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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