KEGG   PATHWAY: snl00020
Entry
snl00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Staphylococcus nepalensis
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
snl00020  Citrate cycle (TCA cycle)
snl00020

Module
snl_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:snl00020]
snl_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:snl00020]
snl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:snl00020]
snl_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:snl00020]
Other DBs
GO: 0006099
Organism
Staphylococcus nepalensis [GN:snl]
Gene
BJD96_05915  citrate synthase [KO:K01659] [EC:2.3.3.5]
BJD96_07605  aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
BJD96_05920  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BJD96_07195  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
BJD96_07200  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
BJD96_09445  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BJD96_06760  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BJD96_08205  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
BJD96_08420  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
BJD96_08425  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
BJD96_09230  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BJD96_09225  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BJD96_09235  succinate dehydrogenase [KO:K00241]
BJD96_05255  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BJD96_11405  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BJD96_03015  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
BJD96_00905  malate dehydrogenase (acceptor) [KO:K00116] [EC:1.1.5.4]
BJD96_09365  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
BJD96_05460  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
BJD96_09460  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
BJD96_09455  2-oxoisovalerate dehydrogenase [KO:K00162] [EC:1.2.4.1]
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
snl00010  Glycolysis / Gluconeogenesis
snl00053  Ascorbate and aldarate metabolism
snl00061  Fatty acid biosynthesis
snl00071  Fatty acid degradation
snl00190  Oxidative phosphorylation
snl00220  Arginine biosynthesis
snl00250  Alanine, aspartate and glutamate metabolism
snl00280  Valine, leucine and isoleucine degradation
snl00350  Tyrosine metabolism
snl00470  D-Amino acid metabolism
snl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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