KEGG   PATHWAY: gph00020
Entry
gph00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Gemmatimonas phototrophica
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
gph00020  Citrate cycle (TCA cycle)
gph00020

Module
gph_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gph00020]
gph_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gph00020]
gph_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gph00020]
Other DBs
GO: 0006099
Organism
Gemmatimonas phototrophica [GN:gph]
Gene
GEMMAAP_03580  hypothetical protein [KO:K01647] [EC:2.3.3.1]
GEMMAAP_13470  acnA; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
GEMMAAP_11710  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GEMMAAP_12530  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
GEMMAAP_02690  hypothetical protein [KO:K00164] [EC:1.2.4.2]
GEMMAAP_03115  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
GEMMAAP_04545  hypothetical protein [KO:K00382] [EC:1.8.1.4]
GEMMAAP_03110  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
GEMMAAP_12020  ferredoxin oxidoreductase [KO:K00174] [EC:1.2.7.3 1.2.7.11]
GEMMAAP_12025  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
GEMMAAP_08920  succinyl-CoA synthetase subsunit alpha [KO:K01902] [EC:6.2.1.5]
GEMMAAP_08925  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
GEMMAAP_09035  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
GEMMAAP_09030  succinate dehydrogenase [KO:K00240] [EC:1.3.5.1]
GEMMAAP_16775  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GEMMAAP_10310  aspA; aspartate ammonia-lyase [KO:K01679] [EC:4.2.1.2]
GEMMAAP_09045  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GEMMAAP_11310  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
GEMMAAP_04575  dehydrogenase [KO:K00161] [EC:1.2.4.1]
GEMMAAP_04570  pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
GEMMAAP_04565  hypothetical protein [KO:K00627] [EC:2.3.1.12]
GEMMAAP_10355  hypothetical protein [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
gph00010  Glycolysis / Gluconeogenesis
gph00053  Ascorbate and aldarate metabolism
gph00061  Fatty acid biosynthesis
gph00071  Fatty acid degradation
gph00190  Oxidative phosphorylation
gph00220  Arginine biosynthesis
gph00250  Alanine, aspartate and glutamate metabolism
gph00280  Valine, leucine and isoleucine degradation
gph00350  Tyrosine metabolism
gph00470  D-Amino acid metabolism
gph00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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