KEGG   PATHWAY: emm00020
Entry
emm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Exiguobacterium marinum
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
emm00020  Citrate cycle (TCA cycle)
emm00020

Module
emm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:emm00020]
emm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:emm00020]
emm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:emm00020]
emm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:emm00020]
Other DBs
GO: 0006099
Organism
Exiguobacterium marinum [GN:emm]
Gene
PTI97_09040  citZ; citrate synthase [KO:K01659] [EC:2.3.3.5]
PTI97_07685  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
PTI97_09035  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PTI97_03785  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PTI97_03790  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
PTI97_05015  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PTI97_08250  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PTI97_05595  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
PTI97_05590  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
PTI97_04205  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PTI97_04210  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PTI97_04200  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
PTI97_06565  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PTI97_09030  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PTI97_00180  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PTI97_05100  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
PTI97_09415  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
PTI97_05000  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
PTI97_05005  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
PTI97_05010  dihydrolipoamide acetyltransferase family 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
emm00010  Glycolysis / Gluconeogenesis
emm00053  Ascorbate and aldarate metabolism
emm00061  Fatty acid biosynthesis
emm00071  Fatty acid degradation
emm00190  Oxidative phosphorylation
emm00220  Arginine biosynthesis
emm00250  Alanine, aspartate and glutamate metabolism
emm00280  Valine, leucine and isoleucine degradation
emm00350  Tyrosine metabolism
emm00470  D-Amino acid metabolism
emm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system