KEGG   PATHWAY: palz00020
Entry
palz00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Populus alba (white poplar)
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
palz00020  Citrate cycle (TCA cycle)
palz00020

Module
palz_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:palz00020]
palz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:palz00020]
palz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:palz00020]
palz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:palz00020]
palz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:palz00020]
Other DBs
GO: 0006099
Organism
Populus alba (white poplar) [GN:palz]
Gene
118041821  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
118045628  citrate synthase, mitochondrial isoform X1 [KO:K01647] [EC:2.3.3.1]
118045907  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
118034958  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
118037789  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
118060892  ATP-citrate synthase alpha chain protein 2-like isoform X1 [KO:K01648] [EC:2.3.3.8]
118062461  ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
118030570  LOW QUALITY PROTEIN: aconitate hydratase 1-like [KO:K01681] [EC:4.2.1.3]
118042678  aconitate hydratase, cytoplasmic-like isoform X1 [KO:K01681] [EC:4.2.1.3]
118040387  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
118029900  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
118030270  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
118043115  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
118055773  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
118036894  LOW QUALITY PROTEIN: isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
118037132  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
118029965  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
118032311  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
118045567  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
118045920  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
118048309  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
118038911  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
118052186  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
118059763  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
118035338  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
118056833  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
118040099  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
118046482  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
118062423  dihydrolipoyl dehydrogenase 2, mitochondrial [KO:K00382] [EC:1.8.1.4]
118062478  dihydrolipoyl dehydrogenase 2, chloroplastic-like isoform X1 [KO:K00382] [EC:1.8.1.4]
118044366  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial-like [KO:K01899] [EC:6.2.1.4 6.2.1.5]
118057254  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
118056216  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial-like [KO:K01900] [EC:6.2.1.4 6.2.1.5]
118039664  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
118063293  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
118029812  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial-like isoform X1 [KO:K00234] [EC:1.3.5.1]
118058130  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial [KO:K00235] [EC:1.3.5.1]
118051830  heat shock 70 kDa protein 10, mitochondrial-like isoform X1 [KO:K00236]
118057488  heat shock 70 kDa protein, mitochondrial-like [KO:K00236]
39331219  sdh4; succinate dehydrogenase subunit 4 [KO:K25801]
118062912  LOW QUALITY PROTEIN: fumarate hydratase 1, mitochondrial-like [KO:K01679] [EC:4.2.1.2]
118046825  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
118042194  malate dehydrogenase, cytoplasmic-like isoform X1 [KO:K00025] [EC:1.1.1.37]
118042251  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
118057252  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
118048848  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
118051793  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
118063178  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
118063548  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
118042730  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
118042731  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
118054103  malate dehydrogenase 1, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
118055136  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
118035036  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
118048618  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
118063162  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
118031532  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
118063461  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
118044808  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like [KO:K00161] [EC:1.2.4.1]
118058531  pyruvate dehydrogenase E1 component subunit alpha-1, mitochondrial [KO:K00161] [EC:1.2.4.1]
118031877  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic [KO:K00162] [EC:1.2.4.1]
118043125  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial isoform X1 [KO:K00162] [EC:1.2.4.1]
118054457  pyruvate dehydrogenase E1 component subunit beta, mitochondrial-like [KO:K00162] [EC:1.2.4.1]
118050854  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
118030499  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
118031028  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
118056515  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like isoform X1 [KO:K00627] [EC:2.3.1.12]
118035521  LOW QUALITY PROTEIN: dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
118047987  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
118040934  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like [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
palz00010  Glycolysis / Gluconeogenesis
palz00053  Ascorbate and aldarate metabolism
palz00061  Fatty acid biosynthesis
palz00062  Fatty acid elongation
palz00071  Fatty acid degradation
palz00190  Oxidative phosphorylation
palz00220  Arginine biosynthesis
palz00250  Alanine, aspartate and glutamate metabolism
palz00280  Valine, leucine and isoleucine degradation
palz00350  Tyrosine metabolism
palz00470  D-Amino acid metabolism
palz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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