KEGG   PATHWAY: not00020
Entry
not00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Novosphingobium sp. THN1
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
not00020  Citrate cycle (TCA cycle)
not00020

Module
not_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:not00020]
not_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:not00020]
Other DBs
GO: 0006099
Organism
Novosphingobium sp. THN1 [GN:not]
Gene
C7W88_09005  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
C7W88_10065  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
C7W88_10060  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
C7W88_10055  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
C7W88_13285  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
C7W88_11605  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
C7W88_10070  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
C7W88_15675  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
C7W88_15670  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
C7W88_03865  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
C7W88_11545  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
C7W88_14595  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
C7W88_11535  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
C7W88_11540  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
C7W88_05160  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
C7W88_11245  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
C7W88_10075  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
C7W88_07450  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
C7W88_12425  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
C7W88_12430  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
C7W88_19315  dehydrogenase [KO:K00627] [EC:2.3.1.12]
C7W88_13275  pyruvate dehydrogenase complex dihydrolipoamide 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
not00010  Glycolysis / Gluconeogenesis
not00053  Ascorbate and aldarate metabolism
not00061  Fatty acid biosynthesis
not00071  Fatty acid degradation
not00190  Oxidative phosphorylation
not00220  Arginine biosynthesis
not00250  Alanine, aspartate and glutamate metabolism
not00280  Valine, leucine and isoleucine degradation
not00350  Tyrosine metabolism
not00470  D-Amino acid metabolism
not00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system