KEGG   PATHWAY: ypi00020
Entry
ypi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia pseudotuberculosis IP 31758 (serotype O:1b)
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
ypi00020  Citrate cycle (TCA cycle)
ypi00020

Module
ypi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ypi00020]
ypi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ypi00020]
ypi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ypi00020]
ypi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ypi00020]
ypi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ypi00020]
Other DBs
GO: 0006099
Organism
Yersinia pseudotuberculosis IP 31758 (serotype O:1b) [GN:ypi]
Gene
YpsIP31758_2886  gltA; citrate synthase I [KO:K01647] [EC:2.3.3.1]
YpsIP31758_1920  acnA; aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
YpsIP31758_3359  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
YpsIP31758_1615  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
YpsIP31758_2881  sucA; 2-oxoglutarate dehydrogenase, E1 component [KO:K00164] [EC:1.2.4.2]
YpsIP31758_2880  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
YpsIP31758_0135  pyridine nucleotide-disulfide oxidoreductase family protein [KO:K00382] [EC:1.8.1.4]
YpsIP31758_3360  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
YpsIP31758_2878  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
YpsIP31758_2879  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
YpsIP31758_2883  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
YpsIP31758_2882  sdhB; succinate dehydrogenase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
YpsIP31758_2885  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
YpsIP31758_2884  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
YpsIP31758_3667  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
YpsIP31758_3668  frdB; fumarate reductase, iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
YpsIP31758_3669  frdC; fumarate reductase, C subunit [KO:K00246]
YpsIP31758_3670  frdD; fumarate reductase, D subunit [KO:K00247]
YpsIP31758_3271  fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
YpsIP31758_1873  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
YpsIP31758_3616  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
YpsIP31758_3978  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
YpsIP31758_3363  aceE; pyruvate dehydrogenase, E1 component [KO:K00163] [EC:1.2.4.1]
YpsIP31758_3362  aceF; pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
YpsIP31758_1803  pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
ypi00010  Glycolysis / Gluconeogenesis
ypi00053  Ascorbate and aldarate metabolism
ypi00061  Fatty acid biosynthesis
ypi00071  Fatty acid degradation
ypi00190  Oxidative phosphorylation
ypi00220  Arginine biosynthesis
ypi00250  Alanine, aspartate and glutamate metabolism
ypi00280  Valine, leucine and isoleucine degradation
ypi00350  Tyrosine metabolism
ypi00470  D-Amino acid metabolism
ypi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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