KEGG   PATHWAY: sjo00020
Entry
sjo00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Scomber japonicus (chub mackerel)
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
sjo00020  Citrate cycle (TCA cycle)
sjo00020

Module
sjo_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:sjo00020]
sjo_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:sjo00020]
sjo_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:sjo00020]
sjo_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:sjo00020]
sjo_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:sjo00020]
Other DBs
GO: 0006099
Organism
Scomber japonicus (chub mackerel) [GN:sjo]
Gene
128357107  cs; citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
128380856  aclyb; ATP-citrate synthase isoform X1 [KO:K01648] [EC:2.3.3.8]
128378405  aclya; ATP-citrate synthase [KO:K01648] [EC:2.3.3.8]
128380991  aco2; aconitate hydratase, mitochondrial [KO:K01681] [EC:4.2.1.3]
128383335  aco1; cytoplasmic aconitate hydratase [KO:K01681] [EC:4.2.1.3]
128379064  aconitate hydratase, mitochondrial-like [KO:K01681] [EC:4.2.1.3]
128358777  idh2; isocitrate dehydrogenase [NADP], mitochondrial [KO:K00031] [EC:1.1.1.42]
128358939  isocitrate dehydrogenase [NADP], mitochondrial-like [KO:K00031] [EC:1.1.1.42]
128367841  idh1; isocitrate dehydrogenase [NADP] cytoplasmic [KO:K00031] [EC:1.1.1.42]
128357667  isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
128358713  idh3a; isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
128359592  isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
128355729  idh3b; isocitrate dehydrogenase [NAD] subunit beta, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
128357427  isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
128380118  ogdhb; 2-oxoglutarate dehydrogenase complex component E1 isoform X1 [KO:K00164] [EC:1.2.4.2]
128364215  caspase recruitment domain-containing protein 9-like [KO:K00164] [EC:1.2.4.2]
128365095  2-oxoglutarate dehydrogenase complex component E1 [KO:K00164] [EC:1.2.4.2]
128372442  ogdhl; 2-oxoglutarate dehydrogenase-like, mitochondrial [KO:K00164] [EC:1.2.4.2]
128375391  dlst; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial isoform X1 [KO:K00658] [EC:2.3.1.61]
128359160  dldh; dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
128372436  suclg1; succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
128354999  suclg2; succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
128367497  sucla2; succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
128366212  sdha; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
128356203  sdhb; succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial [KO:K00235] [EC:1.3.5.1]
128357216  succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
128368865  sdhc; succinate dehydrogenase cytochrome b560 subunit, mitochondrial [KO:K00236]
128360421  sdhdb; succinate dehydrogenase [ubiquinone] cytochrome b small subunit B, mitochondrial [KO:K00237]
128361380  fh; fumarate hydratase, mitochondrial [KO:K01679] [EC:4.2.1.2]
128376897  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
128372742  mdh1ab; malate dehydrogenase 1Ab, NAD (soluble) [KO:K00025] [EC:1.1.1.37]
128366371  mdh2; malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
128383301  pyruvate carboxylase, mitochondrial-like [KO:K01958] [EC:6.4.1.1]
128382061  pck2; phosphoenolpyruvate carboxykinase [GTP], mitochondrial [KO:K01596] [EC:4.1.1.32]
128355701  pck1; phosphoenolpyruvate carboxykinase, cytosolic [GTP] [KO:K01596] [EC:4.1.1.32]
128371335  pdha1a; pyruvate dehydrogenase E1 subunit alpha 1a [KO:K00161] [EC:1.2.4.1]
128382123  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like isoform X1 [KO:K00161] [EC:1.2.4.1]
128355898  pdhb; pyruvate dehydrogenase E1 component subunit beta, mitochondrial [KO:K00162] [EC:1.2.4.1]
128371391  dlat; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial [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
sjo00010  Glycolysis / Gluconeogenesis
sjo00053  Ascorbate and aldarate metabolism
sjo00061  Fatty acid biosynthesis
sjo00062  Fatty acid elongation
sjo00071  Fatty acid degradation
sjo00190  Oxidative phosphorylation
sjo00220  Arginine biosynthesis
sjo00250  Alanine, aspartate and glutamate metabolism
sjo00280  Valine, leucine and isoleucine degradation
sjo00350  Tyrosine metabolism
sjo00470  D-Amino acid metabolism
sjo00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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