KEGG   PATHWAY: gfr00020
Entry
gfr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Geospiza fortis (medium ground-finch)
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
gfr00020  Citrate cycle (TCA cycle)
gfr00020

Module
gfr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gfr00020]
gfr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gfr00020]
gfr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gfr00020]
gfr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gfr00020]
gfr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gfr00020]
Other DBs
GO: 0006099
Organism
Geospiza fortis (medium ground-finch) [GN:gfr]
Gene
102031980  CS; citrate synthase [KO:K01647] [EC:2.3.3.1]
102034815  ACLY; ATP citrate lyase [KO:K01648] [EC:2.3.3.8]
102038496  ACO2; aconitase 2 [KO:K01681] [EC:4.2.1.3]
102040329  ACO1; aconitase 1 [KO:K01681] [EC:4.2.1.3]
102039335  IDH1; isocitrate dehydrogenase (NADP(+)) 1, cytosolic [KO:K00031] [EC:1.1.1.42]
102037274  IDH2; isocitrate dehydrogenase (NADP(+)) 2, mitochondrial [KO:K00031] [EC:1.1.1.42]
102031374  IDH3A; isocitrate dehydrogenase 3 (NAD(+)) alpha [KO:K00030] [EC:1.1.1.41]
102037020  IDH3B; isocitrate dehydrogenase 3 (NAD(+)) beta [KO:K00030] [EC:1.1.1.41]
102044883  OGDHL; oxoglutarate dehydrogenase-like [KO:K00164] [EC:1.2.4.2]
102037918  OGDH; oxoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
102038542  DLST; dihydrolipoamide S-succinyltransferase [KO:K00658] [EC:2.3.1.61]
102035689  DLD; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
102038977  SUCLG1; succinate-CoA ligase alpha subunit [KO:K01899] [EC:6.2.1.4 6.2.1.5]
102042787  SUCLA2; succinate-CoA ligase ADP-forming beta subunit [KO:K01900] [EC:6.2.1.4 6.2.1.5]
102036080  SUCLG2; succinate-CoA ligase GDP-forming beta subunit [KO:K01900] [EC:6.2.1.4 6.2.1.5]
102036351  SDHA; succinate dehydrogenase complex flavoprotein subunit A [KO:K00234] [EC:1.3.5.1]
102037337  SDHB; succinate dehydrogenase complex iron sulfur subunit B [KO:K00235] [EC:1.3.5.1]
102038373  SDHC; succinate dehydrogenase complex subunit C [KO:K00236]
102032079  SDHD; succinate dehydrogenase complex subunit D [KO:K00237]
102036180  FH; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
102043811  MDH1; malate dehydrogenase 1 [KO:K00025] [EC:1.1.1.37]
102031464  MDH2; malate dehydrogenase 2 [KO:K00026] [EC:1.1.1.37]
102035572  PCK1; phosphoenolpyruvate carboxykinase 1 [KO:K01596] [EC:4.1.1.32]
102039093  PDHA1; pyruvate dehydrogenase (lipoamide) alpha 1 [KO:K00161] [EC:1.2.4.1]
102037771  PDHB; pyruvate dehydrogenase (lipoamide) beta [KO:K00162] [EC:1.2.4.1]
102031740  DLAT; dihydrolipoamide S-acetyltransferase [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
gfr00010  Glycolysis / Gluconeogenesis
gfr00053  Ascorbate and aldarate metabolism
gfr00061  Fatty acid biosynthesis
gfr00062  Fatty acid elongation
gfr00071  Fatty acid degradation
gfr00190  Oxidative phosphorylation
gfr00220  Arginine biosynthesis
gfr00250  Alanine, aspartate and glutamate metabolism
gfr00280  Valine, leucine and isoleucine degradation
gfr00350  Tyrosine metabolism
gfr00470  D-Amino acid metabolism
gfr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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