KEGG   PATHWAY: sphk00020
Entry
sphk00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Sphingopyxis fribergensis
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
sphk00020  Citrate cycle (TCA cycle)
sphk00020

Module
sphk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:sphk00020]
sphk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:sphk00020]
sphk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:sphk00020]
sphk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:sphk00020]
sphk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:sphk00020]
Other DBs
GO: 0006099
Organism
Sphingopyxis fribergensis [GN:sphk]
Gene
SKP52_09280  ccsA; Citrate synthase, chromosomal [KO:K01647] [EC:2.3.3.1]
SKP52_02835  acn; Aconitate hydratase [KO:K01681] [EC:4.2.1.3]
SKP52_15365  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
SKP52_03345  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
SKP52_03350  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
SKP52_08840  lpd; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
SKP52_03360  lpd3; Dihydrolipoyl dehydrogenase 3 [KO:K00382] [EC:1.8.1.4]
SKP52_10375  korA; 2-oxoglutarate oxidoreductase subunit KorA [KO:K00174] [EC:1.2.7.3 1.2.7.11]
SKP52_10365  korB; 2-oxoglutarate oxidoreductase subunit KorB [KO:K00175] [EC:1.2.7.3 1.2.7.11]
SKP52_03340  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
SKP52_17740  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
SKP52_22425  cat1; Succinyl-CoA:coenzyme A transferase [KO:K18118] [EC:2.8.3.18]
SKP52_17400  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SKP52_03310  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
SKP52_17410  succinate dehydrogenase, cytochrome b subunit [KO:K00241]
SKP52_17405  succinate dehydrogenase, cytochrome b subunit [KO:K00242]
SKP52_17815  tartrate/fumarate subfamily Fe-S type hydro-lyase subunit alpha [KO:K01676] [EC:4.2.1.2]
SKP52_02150  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
SKP52_03330  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SKP52_18390  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
SKP52_07195  pdhA; Pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
SKP52_07200  pdhB; Pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
SKP52_08850  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
sphk00010  Glycolysis / Gluconeogenesis
sphk00053  Ascorbate and aldarate metabolism
sphk00061  Fatty acid biosynthesis
sphk00062  Fatty acid elongation
sphk00071  Fatty acid degradation
sphk00190  Oxidative phosphorylation
sphk00220  Arginine biosynthesis
sphk00250  Alanine, aspartate and glutamate metabolism
sphk00280  Valine, leucine and isoleucine degradation
sphk00350  Tyrosine metabolism
sphk00470  D-Amino acid metabolism
sphk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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