KEGG   PATHWAY: nak00020
Entry
nak00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nakamurella antarctica
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
nak00020  Citrate cycle (TCA cycle)
nak00020

Module
nak_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nak00020]
nak_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nak00020]
Other DBs
GO: 0006099
Organism
Nakamurella antarctica [GN:nak]
Gene
EH165_03000  citrate synthase [KO:K01647] [EC:2.3.3.1]
EH165_07730  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
EH165_11150  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EH165_04490  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
EH165_09120  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EH165_11205  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
EH165_11210  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
EH165_11055  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EH165_11060  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EH165_11045  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
EH165_11050  succinate dehydrogenase [KO:K00242]
EH165_07875  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EH165_09080  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
EH165_14375  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
EH165_08570  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
EH165_12340  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
EH165_12335  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
EH165_12330  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
EH165_09125  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
nak00010  Glycolysis / Gluconeogenesis
nak00053  Ascorbate and aldarate metabolism
nak00061  Fatty acid biosynthesis
nak00071  Fatty acid degradation
nak00190  Oxidative phosphorylation
nak00220  Arginine biosynthesis
nak00250  Alanine, aspartate and glutamate metabolism
nak00280  Valine, leucine and isoleucine degradation
nak00350  Tyrosine metabolism
nak00470  D-Amino acid metabolism
nak00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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