KEGG   PATHWAY: nob00020
Entry
nob00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nonlabens sp. MB-3u-79
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
nob00020  Citrate cycle (TCA cycle)
nob00020

Module
nob_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nob00020]
nob_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nob00020]
nob_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nob00020]
nob_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nob00020]
nob_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nob00020]
Other DBs
GO: 0006099
Organism
Nonlabens sp. MB-3u-79 [GN:nob]
Gene
CW736_07500  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
CW736_08165  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
CW736_11800  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
CW736_08635  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
CW736_03210  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
CW736_03205  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
CW736_00895  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
CW736_01465  diapophytoene dehydrogenase [KO:K00658] [EC:2.3.1.61]
CW736_09120  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CW736_01050  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CW736_10630  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
CW736_10545  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
CW736_04950  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CW736_04005  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CW736_04955  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CW736_04000  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CW736_04945  succinate dehydrogenase [KO:K00241]
CW736_04010  succinate dehydrogenase [KO:K00241]
CW736_10195  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
CW736_01355  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
CW736_02930  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
CW736_02205  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
CW736_06280  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
CW736_02200  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
nob00010  Glycolysis / Gluconeogenesis
nob00053  Ascorbate and aldarate metabolism
nob00061  Fatty acid biosynthesis
nob00071  Fatty acid degradation
nob00190  Oxidative phosphorylation
nob00220  Arginine biosynthesis
nob00250  Alanine, aspartate and glutamate metabolism
nob00280  Valine, leucine and isoleucine degradation
nob00350  Tyrosine metabolism
nob00470  D-Amino acid metabolism
nob00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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