KEGG   PATHWAY: pdul00020
Entry
pdul00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Prunus dulcis (almond)
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
pdul00020  Citrate cycle (TCA cycle)
pdul00020

Module
pdul_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pdul00020]
pdul_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pdul00020]
pdul_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pdul00020]
Other DBs
GO: 0006099
Organism
Prunus dulcis (almond) [GN:pdul]
Gene
117617727  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
117620686  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
117632713  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
117614900  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
117614901  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
117638465  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
117620780  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
117636143  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
117621366  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
117622886  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
117626571  isocitrate dehydrogenase [NADP]-like isoform X1 [KO:K00031] [EC:1.1.1.42]
117629861  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
117634550  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
117637977  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
117617683  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
117618604  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
117621556  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
117625030  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
117630502  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
117616079  dihydrolipoyl dehydrogenase 1, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
117627203  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
117637357  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
117634211  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
117630387  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
117630388  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
117623174  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
117637765  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
117616179  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
117624715  malate dehydrogenase, cytoplasmic-like isoform X1 [KO:K00025] [EC:1.1.1.37]
117624411  malate dehydrogenase, mitochondrial-like isoform X1 [KO:K00026] [EC:1.1.1.37]
117624620  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
117636701  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
117627410  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
117630836  phosphoenolpyruvate carboxykinase (ATP)-like isoform X1 [KO:K01610] [EC:4.1.1.49]
117630837  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
117615036  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
117618804  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
117631419  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
117613996  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
117625925  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
117616270  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
117617576  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [KO:K00627] [EC:2.3.1.12]
117622213  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
117636470  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [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
pdul00010  Glycolysis / Gluconeogenesis
pdul00053  Ascorbate and aldarate metabolism
pdul00061  Fatty acid biosynthesis
pdul00062  Fatty acid elongation
pdul00071  Fatty acid degradation
pdul00190  Oxidative phosphorylation
pdul00220  Arginine biosynthesis
pdul00250  Alanine, aspartate and glutamate metabolism
pdul00280  Valine, leucine and isoleucine degradation
pdul00350  Tyrosine metabolism
pdul00470  D-Amino acid metabolism
pdul00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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