KEGG   PATHWAY: smac00020
Entry
smac00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Serratia marcescens subsp. marcescens Db11
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
smac00020  Citrate cycle (TCA cycle)
smac00020

Module
smac_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:smac00020]
smac_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:smac00020]
smac_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:smac00020]
smac_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:smac00020]
smac_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:smac00020]
Other DBs
GO: 0006099
Organism
Serratia marcescens subsp. marcescens Db11 [GN:smac]
Gene
SMDB11_0505  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
SMDB11_1919  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
SMDB11_3416  acnB; bifunctional aconitatehydratase2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
SMDB11_1310  icdA; isocitrate dehydrogenase, specific for NADP+ [KO:K00031] [EC:1.1.1.42]
SMDB11_0510  sucA; 2-oxoglutarate decarboxylase, thiamin-requiring [KO:K00164] [EC:1.2.4.2]
SMDB11_0511  sucB; dihydrolipoyltranssuccinase [KO:K00658] [EC:2.3.1.61]
SMDB11_3999  putative pyridine nucleotide-disulphide oxidoreductase [KO:K00382] [EC:1.8.1.4]
SMDB11_3417  lpdA; lipoamide dehydrogenase, E3 component is partof three enzyme complexes [KO:K00382] [EC:1.8.1.4]
SMDB11_0513  sucD; succinyl-CoA synthetase, alpha chain [KO:K01902] [EC:6.2.1.5]
SMDB11_0512  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
SMDB11_0508  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SMDB11_0509  sdhB; succinate dehydrogenase, FeS subunit [KO:K00240] [EC:1.3.5.1]
SMDB11_0506  sdhC; succinate dehydrogenase, membrane subunit,bindcytochrome b556 [KO:K00241]
SMDB11_0507  sdhD; succinate dehydrogenase, membrane subunit,bindcytochrome b556 [KO:K00242]
SMDB11_4467  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
SMDB11_4466  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
SMDB11_4465  frdC; fumarate reductase subunit C [KO:K00246]
SMDB11_4464  frdD; fumarate reductase subunit D [KO:K00247]
SMDB11_3428  fumA; fumarate hydratase, aerobic, class I [KO:K01676] [EC:4.2.1.2]
SMDB11_1536  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
SMDB11_4522  mdh; malate dehydrogenase, NAD(P)-binding [KO:K00024] [EC:1.1.1.37]
SMDB11_0794  mqo; malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
SMDB11_1364  pckA; phosphoenolpyruvate carboxykinas [KO:K01610] [EC:4.1.1.49]
SMDB11_3863  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
SMDB11_2297  pyruvate dehydrogenase, decarboxylase componentE1, thiamin-binding [KO:K00163] [EC:1.2.4.1]
SMDB11_3419  aceE; pyruvate dehydrogenase, decarboxylase componentE1, thiamin-binding [KO:K00163] [EC:1.2.4.1]
SMDB11_3418  aceF; pyruvate dehydrogenase,dihydrolipoyltransacetylase component E2 [KO:K00627] [EC:2.3.1.12]
SMDB11_1856  probable pyruvate-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
smac00010  Glycolysis / Gluconeogenesis
smac00053  Ascorbate and aldarate metabolism
smac00061  Fatty acid biosynthesis
smac00071  Fatty acid degradation
smac00190  Oxidative phosphorylation
smac00220  Arginine biosynthesis
smac00250  Alanine, aspartate and glutamate metabolism
smac00280  Valine, leucine and isoleucine degradation
smac00350  Tyrosine metabolism
smac00470  D-Amino acid metabolism
smac00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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