KEGG   PATHWAY: nni00020
Entry
nni00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nipponia nippon (crested ibis)
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
nni00020  Citrate cycle (TCA cycle)
nni00020

Module
nni_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nni00020]
nni_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nni00020]
nni_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nni00020]
Other DBs
GO: 0006099
Organism
Nipponia nippon (crested ibis) [GN:nni]
Gene
104009868  ACLY; ATP-citrate synthase isoform X1 [KO:K01648] [EC:2.3.3.8]
104010223  IDH1; isocitrate dehydrogenase [NADP] cytoplasmic [KO:K00031] [EC:1.1.1.42]
104010799  DLD; dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
104010903  SUCLA2; succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
104011186  SDHB; LOW QUALITY PROTEIN: succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial [KO:K00235] [EC:1.3.5.1]
104011628  IDH3B; isocitrate dehydrogenase [NAD] subunit beta, mitochondrial [KO:K00030] [EC:1.1.1.41]
104011948  ACO1; cytoplasmic aconitate hydratase [KO:K01681] [EC:4.2.1.3]
104012586  SDHC; succinate dehydrogenase cytochrome b560 subunit, mitochondrial [KO:K00236]
104013047  PCK1; phosphoenolpyruvate carboxykinase, cytosolic [GTP] isoform X1 [KO:K01596] [EC:4.1.1.32]
104013410  SDHA; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
104013423  FH; fumarate hydratase, mitochondrial [KO:K01679] [EC:4.2.1.2]
104013436  OGDHL; 2-oxoglutarate dehydrogenase-like, mitochondrial isoform X1 [KO:K00164] [EC:1.2.4.2]
104014929  MDH1; malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
104016135  MDH2; malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
104016827  IDH3A; isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial [KO:K00030] [EC:1.1.1.41]
104016903  PDHB; pyruvate dehydrogenase E1 component subunit beta, mitochondrial [KO:K00162] [EC:1.2.4.1]
104016998  SUCLG2; succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
104017022  IDH2; isocitrate dehydrogenase [NADP], mitochondrial [KO:K00031] [EC:1.1.1.42]
104018559  SUCLG1; succinyl-CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
104019065  SDHD; succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial [KO:K00237]
104019067  DLAT; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
104020990  DLST; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial [KO:K00658] [EC:2.3.1.61]
104021701  ACO2; aconitate hydratase, mitochondrial [KO:K01681] [EC:4.2.1.3]
104022567  PDHA1; pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial [KO:K00161] [EC:1.2.4.1]
104022598  OGDH; LOW QUALITY PROTEIN: 2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
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
nni00010  Glycolysis / Gluconeogenesis
nni00053  Ascorbate and aldarate metabolism
nni00061  Fatty acid biosynthesis
nni00062  Fatty acid elongation
nni00071  Fatty acid degradation
nni00190  Oxidative phosphorylation
nni00220  Arginine biosynthesis
nni00250  Alanine, aspartate and glutamate metabolism
nni00280  Valine, leucine and isoleucine degradation
nni00350  Tyrosine metabolism
nni00470  D-Amino acid metabolism
nni00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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