KEGG   PATHWAY: sxm00020
Entry
sxm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Shewanella xiamenensis
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
sxm00020  Citrate cycle (TCA cycle)
sxm00020

Module
sxm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:sxm00020]
sxm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:sxm00020]
sxm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:sxm00020]
sxm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:sxm00020]
sxm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:sxm00020]
Other DBs
GO: 0006099
Organism
Shewanella xiamenensis [GN:sxm]
Gene
MKD32_12350  citrate synthase [KO:K01647] [EC:2.3.3.1]
MKD32_19105  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
MKD32_18775  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
MKD32_08875  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
MKD32_14095  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
MKD32_12325  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
MKD32_12320  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
MKD32_18805  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MKD32_12310  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
MKD32_12315  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
MKD32_12335  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MKD32_12330  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MKD32_12345  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
MKD32_12340  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
MKD32_18940  fumarate reductase flavoprotein subunit [KO:K00233] [EC:1.3.5.1 7.1.1.12]
MKD32_18935  fumarate reductase iron-sulfur subunit [KO:K25995] [EC:1.3.5.1 7.1.1.12]
MKD32_18950  fumarate reductase cytochrome b subunit [KO:K25996]
MKD32_18945  fumarate reductase cytochrome b subunit [KO:K25996]
MKD32_16500  fccA; fumarate reductase flavoprotein subunit FccA [KO:K26318] [EC:1.3.2.4]
MKD32_08950  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
MKD32_17450  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
MKD32_00785  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
MKD32_18815  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
MKD32_18810  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue 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
sxm00010  Glycolysis / Gluconeogenesis
sxm00053  Ascorbate and aldarate metabolism
sxm00061  Fatty acid biosynthesis
sxm00071  Fatty acid degradation
sxm00190  Oxidative phosphorylation
sxm00220  Arginine biosynthesis
sxm00250  Alanine, aspartate and glutamate metabolism
sxm00280  Valine, leucine and isoleucine degradation
sxm00350  Tyrosine metabolism
sxm00470  D-Amino acid metabolism
sxm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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