KEGG   PATHWAY: gkd00020
Entry
gkd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Grimontia kaedaensis
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
gkd00020  Citrate cycle (TCA cycle)
gkd00020

Module
gkd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gkd00020]
gkd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gkd00020]
gkd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gkd00020]
gkd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gkd00020]
gkd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gkd00020]
Other DBs
GO: 0006099
Organism
Grimontia kaedaensis [GN:gkd]
Gene
K6Q96_04940  citrate synthase [KO:K01647] [EC:2.3.3.1]
K6Q96_05755  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
K6Q96_07440  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
K6Q96_02060  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
K6Q96_11780  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
K6Q96_04965  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
K6Q96_04970  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
K6Q96_00960  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
K6Q96_02035  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
K6Q96_04980  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
K6Q96_04975  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
K6Q96_04955  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
K6Q96_04960  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
K6Q96_04945  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
K6Q96_04950  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
K6Q96_15600  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
K6Q96_15605  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
K6Q96_15610  frdC; fumarate reductase subunit FrdC [KO:K00246]
K6Q96_15615  frdD; fumarate reductase subunit FrdD [KO:K00247]
K6Q96_10235  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
K6Q96_18800  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
K6Q96_22840  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
K6Q96_15095  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
K6Q96_16215  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
K6Q96_02025  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
K6Q96_15935  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [KO:K00627] [EC:2.3.1.12]
K6Q96_02030  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [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
gkd00010  Glycolysis / Gluconeogenesis
gkd00053  Ascorbate and aldarate metabolism
gkd00061  Fatty acid biosynthesis
gkd00071  Fatty acid degradation
gkd00190  Oxidative phosphorylation
gkd00220  Arginine biosynthesis
gkd00250  Alanine, aspartate and glutamate metabolism
gkd00280  Valine, leucine and isoleucine degradation
gkd00350  Tyrosine metabolism
gkd00470  D-Amino acid metabolism
gkd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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