KEGG   PATHWAY: sde00020
Entry
sde00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Saccharophagus degradans
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
sde00020  Citrate cycle (TCA cycle)
sde00020

Module
sde_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:sde00020]
sde_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:sde00020]
sde_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:sde00020]
sde_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:sde00020]
sde_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:sde00020]
Other DBs
GO: 0006099
Organism
Saccharophagus degradans [GN:sde]
Gene
Sde_2111  citrate synthase [KO:K01647] [EC:2.3.3.1]
Sde_1991  aconitase [KO:K01681] [EC:4.2.1.3]
Sde_1893  aconitase / transcriptional regulator, XRE family [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Sde_1684  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Sde_2106  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
Sde_2105  2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
Sde_2104  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Sde_2102  succinyl-CoA synthetase (ADP-forming) alpha subunit [KO:K01902] [EC:6.2.1.5]
Sde_2103  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
Sde_2108  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Sde_2107  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
Sde_2110  succinate dehydrogenase subunit C [KO:K00241]
Sde_2109  succinate dehydrogenase subunit D [KO:K00242]
Sde_0888  fumarase [KO:K01676] [EC:4.2.1.2]
Sde_1992  fumarase [KO:K01679] [EC:4.2.1.2]
Sde_1659  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
Sde_0992  Phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Sde_2573  2-oxo-acid dehydrogenase E1 component, homodimeric type [KO:K00163] [EC:1.2.4.1]
Sde_2572  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
sde00010  Glycolysis / Gluconeogenesis
sde00053  Ascorbate and aldarate metabolism
sde00061  Fatty acid biosynthesis
sde00071  Fatty acid degradation
sde00190  Oxidative phosphorylation
sde00220  Arginine biosynthesis
sde00250  Alanine, aspartate and glutamate metabolism
sde00280  Valine, leucine and isoleucine degradation
sde00350  Tyrosine metabolism
sde00470  D-Amino acid metabolism
sde00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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