KEGG   PATHWAY: pxb00020
Entry
pxb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pyrus x bretschneideri (Chinese white pear)
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
pxb00020  Citrate cycle (TCA cycle)
pxb00020

Module
pxb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pxb00020]
pxb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pxb00020]
Other DBs
GO: 0006099
Organism
Pyrus x bretschneideri (Chinese white pear) [GN:pxb]
Gene
103945808  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
103941528  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
103931748  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
103954922  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
103928911  ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
103940765  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
103950305  ATP-citrate synthase alpha chain protein 2-like [KO:K01648] [EC:2.3.3.8]
103961317  ATP-citrate synthase beta chain protein 1-like [KO:K01648] [EC:2.3.3.8]
103961236  ATP-citrate synthase alpha chain protein 2-like [KO:K01648] [EC:2.3.3.8]
103936700  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
103944536  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
103953436  aconitate hydratase 1-like [KO:K01681] [EC:4.2.1.3]
103929578  aconitate hydratase 1-like [KO:K01681] [EC:4.2.1.3]
103951452  LOW QUALITY PROTEIN: putative aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
103953293  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
103926949  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103959913  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103965830  isocitrate dehydrogenase [NADP]-like isoform X1 [KO:K00031] [EC:1.1.1.42]
103963975  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
103956814  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103936554  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103934973  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103937711  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103929606  isocitrate dehydrogenase [NAD] regulatory subunit 3, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103942265  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
108867149  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103962419  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
103939122  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
103948385  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
103930021  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
103951386  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial [KO:K00658] [EC:2.3.1.61]
103944548  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
103938807  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
103940492  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
103961256  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
103959321  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
103946849  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103928759  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial-like [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103958852  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103941522  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
103960821  succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
103932925  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
103960948  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
103959687  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
103947548  succinate dehydrogenase subunit 3-1, mitochondrial-like [KO:K00236]
103938333  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
103967193  fumarate hydratase 1, mitochondrial-like [KO:K01679] [EC:4.2.1.2]
103927773  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
103953311  malate dehydrogenase-like isoform X3 [KO:K00025] [EC:1.1.1.37]
103931821  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
103932290  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
103932637  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
103927940  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
103932398  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
103931443  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
103958712  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
103967046  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103967049  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103964654  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
103947643  phosphoenolpyruvate carboxykinase [ATP]-like isoform X2 [KO:K01610] [EC:4.1.1.49]
103935381  phosphoenolpyruvate carboxykinase [ATP]-like isoform X2 [KO:K01610] [EC:4.1.1.49]
103950967  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
103956356  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
103940591  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like [KO:K00162] [EC:1.2.4.1]
103929038  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
103934442  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
103937730  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
103932768  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
103947462  LOW QUALITY PROTEIN: dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103964104  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103958420  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
103958435  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
103961546  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like isoform X1 [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
pxb00010  Glycolysis / Gluconeogenesis
pxb00053  Ascorbate and aldarate metabolism
pxb00061  Fatty acid biosynthesis
pxb00062  Fatty acid elongation
pxb00071  Fatty acid degradation
pxb00190  Oxidative phosphorylation
pxb00220  Arginine biosynthesis
pxb00250  Alanine, aspartate and glutamate metabolism
pxb00280  Valine, leucine and isoleucine degradation
pxb00350  Tyrosine metabolism
pxb00470  D-Amino acid metabolism
pxb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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