KEGG   PATHWAY: flm00020
Entry
flm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Flammeovirga sp. MY04
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
flm00020  Citrate cycle (TCA cycle)
flm00020

Module
flm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:flm00020]
flm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:flm00020]
flm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:flm00020]
flm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:flm00020]
flm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:flm00020]
Other DBs
GO: 0006099
Organism
Flammeovirga sp. MY04 [GN:flm]
Gene
MY04_1155  citrate synthase [KO:K01647] [EC:2.3.3.1]
MY04_4893  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
MY04_0177  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
MY04_1445  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
MY04_1443  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
MY04_2598  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
MY04_1442  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MY04_3478  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MY04_2413  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
MY04_1153  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
MY04_0266  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MY04_0267  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MY04_0265  succinate dehydrogenase cytochrome b subunit [KO:K00241]
MY04_3047  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
MY04_1163  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
MY04_1147  carboxylase [KO:K01960] [EC:6.4.1.1]
MY04_3689  oxaloacetate decarboxylase [KO:K01960] [EC:6.4.1.1]
MY04_0323  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
MY04_3290  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
MY04_3773  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
MY04_0148  biotin/lipoyl-binding protein [KO:K00627] [EC:2.3.1.12]
MY04_4907  pyruvate ferredoxin 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
flm00010  Glycolysis / Gluconeogenesis
flm00053  Ascorbate and aldarate metabolism
flm00061  Fatty acid biosynthesis
flm00071  Fatty acid degradation
flm00190  Oxidative phosphorylation
flm00220  Arginine biosynthesis
flm00250  Alanine, aspartate and glutamate metabolism
flm00280  Valine, leucine and isoleucine degradation
flm00350  Tyrosine metabolism
flm00470  D-Amino acid metabolism
flm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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