KEGG   PATHWAY: chrb00020
Entry
chrb00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Chromobacterium phragmitis IIBBL 274-1
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
chrb00020  Citrate cycle (TCA cycle)
chrb00020

Module
chrb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:chrb00020]
chrb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:chrb00020]
chrb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:chrb00020]
chrb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:chrb00020]
Other DBs
GO: 0006099
Organism
Chromobacterium phragmitis IIBBL 274-1 [GN:chrb]
Gene
DK843_18360  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DK843_09405  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
DK843_02380  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DK843_08880  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DK843_18365  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DK843_18370  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
DK843_18380  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DK843_12230  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DK843_00430  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DK843_18395  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
DK843_18390  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
DK843_18345  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DK843_18350  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DK843_18335  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DK843_18340  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DK843_07250  fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
DK843_07245  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
DK843_07240  fumarate reductase subunit C [KO:K00246]
DK843_07235  fumarate reductase subunit FrdD [KO:K00247]
DK843_07800  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
DK843_18605  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
DK843_09410  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
DK843_18325  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DK843_12240  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DK843_12235  aceF; 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
chrb00010  Glycolysis / Gluconeogenesis
chrb00053  Ascorbate and aldarate metabolism
chrb00061  Fatty acid biosynthesis
chrb00071  Fatty acid degradation
chrb00190  Oxidative phosphorylation
chrb00220  Arginine biosynthesis
chrb00250  Alanine, aspartate and glutamate metabolism
chrb00280  Valine, leucine and isoleucine degradation
chrb00350  Tyrosine metabolism
chrb00470  D-Amino acid metabolism
chrb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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