KEGG   PATHWAY: cmk00020
Entry
cmk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Callorhinchus milii (elephant shark)
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
cmk00020  Citrate cycle (TCA cycle)
cmk00020

Module
cmk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cmk00020]
cmk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cmk00020]
Other DBs
GO: 0006099
Organism
Callorhinchus milii (elephant shark) [GN:cmk]
Gene
103191028  cs; citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
103185738  aclya; LOW QUALITY PROTEIN: ATP-citrate synthase [KO:K01648] [EC:2.3.3.8]
103187210  aco1; cytoplasmic aconitate hydratase [KO:K01681] [EC:4.2.1.3]
103189232  aco2; aconitate hydratase, mitochondrial [KO:K01681] [EC:4.2.1.3]
103187483  idh2; isocitrate dehydrogenase [NADP], mitochondrial [KO:K00031] [EC:1.1.1.42]
103182930  idh1; isocitrate dehydrogenase [NADP] cytoplasmic [KO:K00031] [EC:1.1.1.42]
103188099  idh3a; isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial [KO:K00030] [EC:1.1.1.41]
103181704  LOW QUALITY PROTEIN: 2-oxoglutarate dehydrogenase-like, mitochondrial [KO:K00164] [EC:1.2.4.2]
103187816  2-oxoglutarate dehydrogenase, mitochondrial isoform X1 [KO:K00164] [EC:1.2.4.2]
103188491  dlst; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial [KO:K00658] [EC:2.3.1.61]
103189342  dldh; dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
103181504  suclg1; succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103177882  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103177541  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial isoform X1 [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103179782  suclg2; succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial isoform X1 [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103181549  sdha; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
103187447  sdhb; succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial [KO:K00235] [EC:1.3.5.1]
103191157  sdhdb; succinate dehydrogenase [ubiquinone] cytochrome b small subunit B, mitochondrial [KO:K00237]
103178924  fh; fumarate hydratase, mitochondrial [KO:K01679] [EC:4.2.1.2]
103177941  mdh1ab; malate dehydrogenase 1Ab, NAD (soluble) [KO:K00025] [EC:1.1.1.37]
103172058  LOW QUALITY PROTEIN: malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
103186901  mdh2; malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
103190321  pyruvate carboxylase, mitochondrial [KO:K01958] [EC:6.4.1.1]
103171639  phosphoenolpyruvate carboxykinase, cytosolic [GTP] [KO:K01596] [EC:4.1.1.32]
103171656  phosphoenolpyruvate carboxykinase, cytosolic [GTP]-like [KO:K01596] [EC:4.1.1.32]
103177504  pdha1; pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial [KO:K00161] [EC:1.2.4.1]
103190042  pdhb; pyruvate dehydrogenase E1 component subunit beta, mitochondrial isoform X1 [KO:K00162] [EC:1.2.4.1]
103191583  dlat; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial 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
cmk00010  Glycolysis / Gluconeogenesis
cmk00053  Ascorbate and aldarate metabolism
cmk00061  Fatty acid biosynthesis
cmk00062  Fatty acid elongation
cmk00071  Fatty acid degradation
cmk00190  Oxidative phosphorylation
cmk00220  Arginine biosynthesis
cmk00250  Alanine, aspartate and glutamate metabolism
cmk00280  Valine, leucine and isoleucine degradation
cmk00350  Tyrosine metabolism
cmk00470  D-Amino acid metabolism
cmk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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