KEGG   PATHWAY: osa00020
Entry
osa00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Oryza sativa japonica (Japanese rice)
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
osa00020  Citrate cycle (TCA cycle)
osa00020

Module
osa_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:osa00020]
osa_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:osa00020]
osa_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:osa00020]
osa_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:osa00020]
osa_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:osa00020]
Other DBs
GO: 0006099
Organism
Oryza sativa japonica (Japanese rice) [GN:osa]
Gene
4324176  [KO:K00031] [EC:1.1.1.42]
4324442  [KO:K00030] [EC:1.1.1.41]
4325777  ACLB-1; ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
4326249  [KO:K00026] [EC:1.1.1.37]
4326521  SDH4; succinate dehydrogenase subunit 4, mitochondrial [KO:K25801]
4326849  [KO:K00382] [EC:1.8.1.4]
4326980  [KO:K00382] [EC:1.8.1.4]
4327213  [KO:K00031] [EC:1.1.1.42]
4327423  [KO:K00026] [EC:1.1.1.37]
4328010  [KO:K00627] [EC:2.3.1.12]
4328125  OsJ_05172; succinate dehydrogenase subunit 3-1, mitochondrial [KO:K00236]
4328598  [KO:K01647] [EC:2.3.3.1]
4328812  [KO:K01647] [EC:2.3.3.1]
4329858  [KO:K00030] [EC:1.1.1.41]
4330016  OsJ_07569; succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
4330673  OsJ_08320; pyruvate dehydrogenase E1 component subunit alpha-1, mitochondrial [KO:K00161] [EC:1.2.4.1]
4331547  [KO:K01681] [EC:4.2.1.3]
4332293  [KO:K01610] [EC:4.1.1.49]
4332774  [KO:K01679] [EC:4.2.1.2]
4333564  OsJ_11888; pyruvate dehydrogenase E1 component subunit beta-4, chloroplastic [KO:K00162] [EC:1.2.4.1]
4334274  [KO:K00026] [EC:1.1.1.37]
4334968  OsJ_13591; pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
4335673  [KO:K00164] [EC:1.2.4.2]
4335689  [KO:K00658] [EC:2.3.1.61]
4336169  [KO:K00030] [EC:1.1.1.41]
4336353  [KO:K00031] [EC:1.1.1.42]
4336595  [KO:K00025] [EC:1.1.1.37]
4337862  [KO:K00382] [EC:1.8.1.4]
4337881  [KO:K00382] [EC:1.8.1.4]
4338591  [KO:K25801]
4339674  [KO:K00031] [EC:1.1.1.42]
4339682  [KO:K00026] [EC:1.1.1.37]
4339859  [KO:K00627] [EC:2.3.1.12]
4340640  PDHE1-A; pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
4340833  [KO:K01681] [EC:4.2.1.3]
4341113  [KO:K00627] [EC:2.3.1.12]
4342350  FP; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
4343003  [KO:K00627] [EC:2.3.1.12]
4343404  OsJ_24481; succinate dehydrogenase subunit 3-2, mitochondrial [KO:K00236]
4343710  OsJ_24862; succinate--CoA ligase [ADP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
4343993  [KO:K00026] [EC:1.1.1.37]
4344403  [KO:K00164] [EC:1.2.4.2]
4344541  Ip; succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial isoform 1 [KO:K00235] [EC:1.3.5.1]
4345640  [KO:K00627] [EC:2.3.1.12]
4345657  [KO:K00026] [EC:1.1.1.37]
4346159  OsJ_28086; pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
4346890  [KO:K00235] [EC:1.3.5.1]
4347022  [KO:K00627] [EC:2.3.1.12]
4347531  OsJ_29962; pyruvate dehydrogenase E1 component subunit beta-2, mitochondrial [KO:K00162] [EC:1.2.4.1]
4348268  [KO:K01610] [EC:4.1.1.49]
4348905  PP37; malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
4350660  [KO:K01647] [EC:2.3.3.1]
4351678  [KO:K00627] [EC:2.3.1.12]
4352549  ACLA-3; ATP-citrate synthase alpha chain protein 3 [KO:K01648] [EC:2.3.3.8]
4352803  [KO:K00162] [EC:1.2.4.1]
4352871  OsJ_36976; malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
9266803  [KO:K00658] [EC:2.3.1.61]
9270306  [KO:K01681] [EC:4.2.1.3]
9272295  ACLA-2; ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
9272485  [KO:K01648] [EC:2.3.3.8]
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
osa00010  Glycolysis / Gluconeogenesis
osa00053  Ascorbate and aldarate metabolism
osa00061  Fatty acid biosynthesis
osa00062  Fatty acid elongation
osa00071  Fatty acid degradation
osa00190  Oxidative phosphorylation
osa00220  Arginine biosynthesis
osa00250  Alanine, aspartate and glutamate metabolism
osa00280  Valine, leucine and isoleucine degradation
osa00350  Tyrosine metabolism
osa00470  D-Amino acid metabolism
osa00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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