KEGG   PATHWAY: phm00020
Entry
phm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Phycisphaera mikurensis
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
phm00020  Citrate cycle (TCA cycle)
phm00020

Module
phm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:phm00020]
phm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:phm00020]
phm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:phm00020]
phm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:phm00020]
phm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:phm00020]
Other DBs
GO: 0006099
Organism
Phycisphaera mikurensis [GN:phm]
Gene
PSMK_08260  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
PSMK_18670  acnA; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PSMK_13790  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PSMK_31520  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PSMK_03390  sucA; putative 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PSMK_31640  sucB; putative 2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
PSMK_03020  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PSMK_08090  lpd; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PSMK_18610  putative 2-oxoglutarate ferredoxin oxidoreductase alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
PSMK_18090  putative 2-oxoglutarate ferredoxin oxidoreductase beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
PSMK_22870  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
PSMK_22310  sucC; succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
PSMK_21110  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PSMK_15250  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PSMK_21100  sdhC; succinate dehydrogenase cytochrome b subunit [KO:K00241]
PSMK_15330  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
PSMK_18250  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PSMK_15670  putative carboxyltransferase [KO:K01960] [EC:6.4.1.1]
PSMK_26370  pckA; phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
PSMK_00290  pdhA; putative pyruvate dehydrogenase E1 component alpha subunit [KO:K00161] [EC:1.2.4.1]
PSMK_00250  pdhB; putative pyruvate dehydrogenase E1 component beta subunit [KO:K00162] [EC:1.2.4.1]
PSMK_12640  pdhC; putative pyruvate dehydrogenase E2 component [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
phm00010  Glycolysis / Gluconeogenesis
phm00053  Ascorbate and aldarate metabolism
phm00061  Fatty acid biosynthesis
phm00071  Fatty acid degradation
phm00190  Oxidative phosphorylation
phm00220  Arginine biosynthesis
phm00250  Alanine, aspartate and glutamate metabolism
phm00280  Valine, leucine and isoleucine degradation
phm00350  Tyrosine metabolism
phm00470  D-Amino acid metabolism
phm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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