KEGG   PATHWAY: smic00020
Entry
smic00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Sphingosinicella microcystinivorans
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
smic00020  Citrate cycle (TCA cycle)
smic00020

Module
smic_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:smic00020]
smic_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:smic00020]
smic_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:smic00020]
smic_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:smic00020]
smic_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:smic00020]
Other DBs
GO: 0006099
Organism
Sphingosinicella microcystinivorans [GN:smic]
Gene
SmB9_19980  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
SmB9_25660  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
SmB9_02850  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
SmB9_11780  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
SmB9_27350  icdA; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
SmB9_11750  hypothetical protein [KO:K00030] [EC:1.1.1.41]
SmB9_22320  sucA; 2-oxoglutarate dehydrogenase subunit E1 [KO:K00164] [EC:1.2.4.2]
SmB9_16900  sucB1; dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
SmB9_22330  sucB; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
SmB9_26330  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
SmB9_22350  lpdA1; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
SmB9_19450  korA; 2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
SmB9_19460  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
SmB9_22310  sucD; succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
SmB9_22300  sucC; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
SmB9_34130  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SmB9_21930  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
SmB9_34150  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
SmB9_34140  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
SmB9_24940  fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
SmB9_15960  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
SmB9_22290  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SmB9_12170  pckA; phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
SmB9_03920  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
SmB9_26290  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
SmB9_26300  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
SmB9_26310  acetyltransferase component of pyruvate dehydrogenase complex [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
smic00010  Glycolysis / Gluconeogenesis
smic00053  Ascorbate and aldarate metabolism
smic00061  Fatty acid biosynthesis
smic00071  Fatty acid degradation
smic00190  Oxidative phosphorylation
smic00220  Arginine biosynthesis
smic00250  Alanine, aspartate and glutamate metabolism
smic00280  Valine, leucine and isoleucine degradation
smic00350  Tyrosine metabolism
smic00470  D-Amino acid metabolism
smic00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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