KEGG   PATHWAY: ncc00020
Entry
ncc00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Notothenia coriiceps (black rockcod)
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
ncc00020  Citrate cycle (TCA cycle)
ncc00020

Module
ncc_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ncc00020]
ncc_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ncc00020]
Other DBs
GO: 0006099
Organism
Notothenia coriiceps (black rockcod) [GN:ncc]
Gene
104942001  mdh1; malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
104942739  [KO:K00025] [EC:1.1.1.37]
104945632  sdhd; succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial [KO:K00237]
104946225  idh3g; isocitrate dehydrogenase [NAD] subunit gamma, mitochondrial [KO:K00030] [EC:1.1.1.41]
104948021  ogdh; 2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
104948761  [KO:K00627] [EC:2.3.1.12]
104949017  [KO:K00235] [EC:1.3.5.1]
104949162  acly; ATP-citrate synthase [KO:K01648] [EC:2.3.3.8]
104950031  fh; fumarate hydratase, mitochondrial [KO:K01679] [EC:4.2.1.2]
104951613  [KO:K00030] [EC:1.1.1.41]
104952821  sdha; succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
104953004  suclg1; succinyl-CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
104953087  [KO:K01596] [EC:4.1.1.32]
104953439  idh3a; isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
104955197  mdh2; malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
104955460  sdhc; succinate dehydrogenase cytochrome b560 subunit, mitochondrial [KO:K00236]
104955727  [KO:K00031] [EC:1.1.1.42]
104956181  aco2; aconitate hydratase, mitochondrial [KO:K01681] [EC:4.2.1.3]
104957256  cs; citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
104959019  sdhb; succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial [KO:K00235] [EC:1.3.5.1]
104959124  pdhb; pyruvate dehydrogenase E1 component subunit beta, mitochondrial [KO:K00162] [EC:1.2.4.1]
104959998  [KO:K00164] [EC:1.2.4.2]
104960528  pc; pyruvate carboxylase, mitochondrial [KO:K01958] [EC:6.4.1.1]
104960622  [KO:K00161] [EC:1.2.4.1]
104960694  [KO:K00164] [EC:1.2.4.2]
104961320  aco1; cytoplasmic aconitate hydratase [KO:K01681] [EC:4.2.1.3]
104963636  dlst; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial [KO:K00658] [EC:2.3.1.61]
104964032  idh2; isocitrate dehydrogenase [NADP], mitochondrial [KO:K00031] [EC:1.1.1.42]
104964429  [KO:K00658] [EC:2.3.1.61]
104964856  idh3b; isocitrate dehydrogenase [NAD] subunit beta, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
104965989  [KO:K00161] [EC:1.2.4.1]
104966239  [KO:K01596] [EC:4.1.1.32]
104967624  [KO:K01648] [EC:2.3.3.8]
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
ncc00010  Glycolysis / Gluconeogenesis
ncc00053  Ascorbate and aldarate metabolism
ncc00061  Fatty acid biosynthesis
ncc00062  Fatty acid elongation
ncc00071  Fatty acid degradation
ncc00190  Oxidative phosphorylation
ncc00220  Arginine biosynthesis
ncc00250  Alanine, aspartate and glutamate metabolism
ncc00280  Valine, leucine and isoleucine degradation
ncc00350  Tyrosine metabolism
ncc00470  D-Amino acid metabolism
ncc00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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