KEGG   PATHWAY: misz00020
Entry
misz00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Methylomagnum ishizawai
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
misz00020  Citrate cycle (TCA cycle)
misz00020

Module
misz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:misz00020]
misz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:misz00020]
misz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:misz00020]
misz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:misz00020]
Other DBs
GO: 0006099
Organism
Methylomagnum ishizawai [GN:misz]
Gene
MishRS11D_24110  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
MishRS11D_15160  acnB; aconitate hydratase B [KO:K01682] [EC:4.2.1.3 4.2.1.99]
MishRS11D_30020  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
MishRS11D_01150  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
MishRS11D_22690  sucA; 2-oxoglutarate dehydrogenase subunit E1 [KO:K00164] [EC:1.2.4.2]
MishRS11D_22680  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
MishRS11D_17970  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MishRS11D_08790  sucD_1; succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
MishRS11D_08780  sucC_1; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
MishRS11D_24150  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MishRS11D_24140  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MishRS11D_24170  succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
MishRS11D_24160  sdhD; succinate dehydrogenase membrane anchor subunit [KO:K00242]
MishRS11D_23320  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
MishRS11D_00710  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
MishRS11D_08090  pyruvate carboxylase subunit A [KO:K01959] [EC:6.4.1.1]
MishRS11D_08100  pyruvate carboxylase subunit B [KO:K01960] [EC:6.4.1.1]
MishRS11D_17940  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
MishRS11D_17950  pdhB; acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
MishRS11D_24330  hypothetical protein [KO:K00627] [EC:2.3.1.12]
MishRS11D_17730  nifJ-1; pyruvate-flavodoxin oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
misz00010  Glycolysis / Gluconeogenesis
misz00053  Ascorbate and aldarate metabolism
misz00061  Fatty acid biosynthesis
misz00071  Fatty acid degradation
misz00190  Oxidative phosphorylation
misz00220  Arginine biosynthesis
misz00250  Alanine, aspartate and glutamate metabolism
misz00280  Valine, leucine and isoleucine degradation
misz00350  Tyrosine metabolism
misz00470  D-Amino acid metabolism
misz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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