KEGG   PATHWAY: afb00020
Entry
afb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Anoplopoma fimbria (sablefish)
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
afb00020  Citrate cycle (TCA cycle)
afb00020

Module
afb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:afb00020]
afb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:afb00020]
afb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:afb00020]
afb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:afb00020]
afb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:afb00020]
Other DBs
GO: 0006099
Organism
Anoplopoma fimbria (sablefish) [GN:afb]
Gene
129099588  cs; citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
129091007  aclyb; ATP-citrate synthase isoform X1 [KO:K01648] [EC:2.3.3.8]
129098442  aclya; ATP-citrate synthase [KO:K01648] [EC:2.3.3.8]
129091228  aco2; aconitate hydratase, mitochondrial [KO:K01681] [EC:4.2.1.3]
129093246  aco1; cytoplasmic aconitate hydratase [KO:K01681] [EC:4.2.1.3]
129098762  aconitate hydratase, mitochondrial-like [KO:K01681] [EC:4.2.1.3]
129107890  idh2; isocitrate dehydrogenase [NADP], mitochondrial [KO:K00031] [EC:1.1.1.42]
129104685  idh1; isocitrate dehydrogenase [NADP] cytoplasmic [KO:K00031] [EC:1.1.1.42]
129109191  isocitrate dehydrogenase [NADP], mitochondrial-like [KO:K00031] [EC:1.1.1.42]
129099654  idh3g; isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial [KO:K00030] [EC:1.1.1.41]
129105359  idh3b; isocitrate dehydrogenase [NAD] subunit beta, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
129100132  isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
129103114  LOW QUALITY PROTEIN: isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
129108356  idh3a; isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
129100795  ogdha; oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide) isoform X1 [KO:K00164] [EC:1.2.4.2]
129102143  ogdhb; 2-oxoglutarate dehydrogenase complex component E1 isoform X1 [KO:K00164] [EC:1.2.4.2]
129092016  ogdhl; 2-oxoglutarate dehydrogenase-like, mitochondrial [KO:K00164] [EC:1.2.4.2]
129107201  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
129103457  dlst; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial [KO:K00658] [EC:2.3.1.61]
129108186  dldh; dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
129096016  suclg1; succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
129105656  suclg2; succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
129104450  sucla2; succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
129109363  sdha; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
129105470  sdhb; succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial [KO:K00235] [EC:1.3.5.1]
129100052  succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
129089416  sdhc; succinate dehydrogenase cytochrome b560 subunit, mitochondrial [KO:K00236]
129092775  sdhdb; succinate dehydrogenase [ubiquinone] cytochrome b small subunit B, mitochondrial [KO:K00237]
129094798  fh; fumarate hydratase, mitochondrial [KO:K01679] [EC:4.2.1.2]
129095653  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
129092364  mdh1ab; malate dehydrogenase 1Ab, NAD (soluble) [KO:K00025] [EC:1.1.1.37]
129109912  mdh2; malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
129093040  pcxb; pyruvate carboxylase, mitochondrial isoform X1 [KO:K01958] [EC:6.4.1.1]
129105744  pck1; phosphoenolpyruvate carboxykinase, cytosolic [GTP] [KO:K01596] [EC:4.1.1.32]
129110756  phosphoenolpyruvate carboxykinase, cytosolic [GTP]-like [KO:K01596] [EC:4.1.1.32]
129110563  pdha1b; pyruvate dehydrogenase E1 subunit alpha 1b isoform X1 [KO:K00161] [EC:1.2.4.1]
129113046  pdha1a; pyruvate dehydrogenase E1 subunit alpha 1a [KO:K00161] [EC:1.2.4.1]
129106425  pdhb; pyruvate dehydrogenase E1 component subunit beta, mitochondrial [KO:K00162] [EC:1.2.4.1]
129113196  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
afb00010  Glycolysis / Gluconeogenesis
afb00053  Ascorbate and aldarate metabolism
afb00061  Fatty acid biosynthesis
afb00062  Fatty acid elongation
afb00071  Fatty acid degradation
afb00190  Oxidative phosphorylation
afb00220  Arginine biosynthesis
afb00250  Alanine, aspartate and glutamate metabolism
afb00280  Valine, leucine and isoleucine degradation
afb00350  Tyrosine metabolism
afb00470  D-Amino acid metabolism
afb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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