KEGG   PATHWAY: nya00020
Entry
nya00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nocardia yamanashiensis
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
nya00020  Citrate cycle (TCA cycle)
nya00020

Module
nya_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nya00020]
nya_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nya00020]
nya_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nya00020]
nya_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nya00020]
nya_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nya00020]
Other DBs
GO: 0006099
Organism
Nocardia yamanashiensis [GN:nya]
Gene
LTV02_01080  bifunctional 2-methylcitrate synthase/citrate synthase [KO:K01647] [EC:2.3.3.1]
LTV02_27920  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
LTV02_27935  citrate synthase [KO:K01647] [EC:2.3.3.1]
LTV02_08775  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
LTV02_26250  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LTV02_20965  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]
LTV02_25175  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LTV02_06395  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
LTV02_06400  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
LTV02_23325  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LTV02_23330  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LTV02_12310  FAD-dependent oxidoreductase [KO:K00239] [EC:1.3.5.1]
LTV02_26050  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LTV02_32015  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LTV02_26055  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LTV02_32010  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LTV02_26040  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
LTV02_26045  succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
LTV02_13825  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LTV02_21645  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LTV02_06360  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LTV02_01850  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LTV02_10435  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LTV02_24165  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LTV02_01100  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
LTV02_11740  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
LTV02_32735  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
LTV02_18050  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LTV02_17390  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
nya00010  Glycolysis / Gluconeogenesis
nya00053  Ascorbate and aldarate metabolism
nya00061  Fatty acid biosynthesis
nya00071  Fatty acid degradation
nya00190  Oxidative phosphorylation
nya00220  Arginine biosynthesis
nya00250  Alanine, aspartate and glutamate metabolism
nya00280  Valine, leucine and isoleucine degradation
nya00350  Tyrosine metabolism
nya00470  D-Amino acid metabolism
nya00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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