KEGG   PATHWAY: spsd00020
Entry
spsd00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Staphylococcus shinii
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
spsd00020  Citrate cycle (TCA cycle)
spsd00020

Module
spsd_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:spsd00020]
spsd_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:spsd00020]
spsd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:spsd00020]
spsd_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:spsd00020]
spsd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:spsd00020]
Other DBs
GO: 0006099
Organism
Staphylococcus shinii [GN:spsd]
Gene
JMB28_06275  citrate synthase [KO:K01659] [EC:2.3.3.5]
JMB28_07970  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
JMB28_06280  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
JMB28_07545  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
JMB28_07550  sucB; dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
JMB28_07100  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JMB28_09200  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
JMB28_08280  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
JMB28_08275  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
JMB28_08495  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
JMB28_08500  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
JMB28_08965  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
JMB28_08960  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
JMB28_08970  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
JMB28_05565  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
JMB28_10930  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
JMB28_01380  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
JMB28_03365  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
JMB28_09100  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
JMB28_05820  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
JMB28_09215  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
JMB28_09210  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
JMB28_09205  2-oxo acid dehydrogenase subunit E2 [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
spsd00010  Glycolysis / Gluconeogenesis
spsd00053  Ascorbate and aldarate metabolism
spsd00061  Fatty acid biosynthesis
spsd00071  Fatty acid degradation
spsd00190  Oxidative phosphorylation
spsd00220  Arginine biosynthesis
spsd00250  Alanine, aspartate and glutamate metabolism
spsd00280  Valine, leucine and isoleucine degradation
spsd00350  Tyrosine metabolism
spsd00470  D-Amino acid metabolism
spsd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system