KEGG   PATHWAY: ssy00020
Entry
ssy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Sphingobium sp. SYK-6
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
ssy00020  Citrate cycle (TCA cycle)
ssy00020

Module
ssy_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ssy00020]
ssy_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ssy00020]
ssy_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ssy00020]
ssy_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ssy00020]
ssy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ssy00020]
Other DBs
GO: 0006099
Organism
Sphingobium sp. SYK-6 [GN:ssy]
Gene
SLG_25260  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
SLG_37460  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
SLG_11220  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
SLG_15400  icd; isocitrate dehydrogenase (NADP+) [KO:K00031] [EC:1.1.1.42]
SLG_00730  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
SLG_00740  sucB; 2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
SLG_00750  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SLG_09680  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SLG_36250  pdhD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SLG_00720  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
SLG_32000  sucC; succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
SLG_11950  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SLG_00660  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
SLG_11930  sdhC; succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
SLG_11940  sdhD; succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
SLG_04850  fumarate hydratase FumA/FumB [KO:K01676] [EC:4.2.1.2]
SLG_09610  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
SLG_00710  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SLG_14800  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
SLG_11810  conserved hypothetical protein [KO:K00163] [EC:1.2.4.1]
SLG_24000  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
SLG_18960  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
SLG_23990  pdhB; pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
SLG_18970  pdhB; pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
SLG_18980  putative acyltransferase [KO:K00627] [EC:2.3.1.12]
SLG_36230  pdhC; pyruvate dehydrogenase E2 component [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
ssy00010  Glycolysis / Gluconeogenesis
ssy00053  Ascorbate and aldarate metabolism
ssy00061  Fatty acid biosynthesis
ssy00071  Fatty acid degradation
ssy00190  Oxidative phosphorylation
ssy00220  Arginine biosynthesis
ssy00250  Alanine, aspartate and glutamate metabolism
ssy00280  Valine, leucine and isoleucine degradation
ssy00350  Tyrosine metabolism
ssy00470  D-Amino acid metabolism
ssy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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