KEGG   PATHWAY: nda00020
Entry
nda00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nocardiopsis dassonvillei
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
nda00020  Citrate cycle (TCA cycle)
nda00020

Module
nda_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nda00020]
nda_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nda00020]
nda_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nda00020]
nda_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nda00020]
nda_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nda00020]
Other DBs
GO: 0006099
Organism
Nocardiopsis dassonvillei [GN:nda]
Gene
Ndas_4410  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Ndas_2866  aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
Ndas_0999  aconitate hydratase domain protein [KO:K27802] [EC:4.2.1.3 4.2.1.99]
Ndas_3960  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Ndas_3681  2-oxoglutarate dehydrogenase, E1 subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
Ndas_0944  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Ndas_5367  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Ndas_5089  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Ndas_5088  thiamine pyrophosphate protein domain protein TPP-binding protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Ndas_4116  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Ndas_0061  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Ndas_0060  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Ndas_4117  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Ndas_3922  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Ndas_3926  fumarate reductase/succinate dehydrogenase flavoprotein domain protein [KO:K00239] [EC:1.3.5.1]
Ndas_3921  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Ndas_3927  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Ndas_3923  succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family [KO:K00241]
Ndas_0107  fumarate lyase [KO:K01679] [EC:4.2.1.2]
Ndas_0774  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Ndas_1152  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
Ndas_4143  Phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
Ndas_4804  pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Ndas_4805  Transketolase central region [KO:K00162] [EC:1.2.4.1]
Ndas_4806  catalytic domain of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
Ndas_0943  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
nda00010  Glycolysis / Gluconeogenesis
nda00053  Ascorbate and aldarate metabolism
nda00061  Fatty acid biosynthesis
nda00071  Fatty acid degradation
nda00190  Oxidative phosphorylation
nda00220  Arginine biosynthesis
nda00250  Alanine, aspartate and glutamate metabolism
nda00280  Valine, leucine and isoleucine degradation
nda00350  Tyrosine metabolism
nda00470  D-Amino acid metabolism
nda00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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