KEGG   PATHWAY: msei00020
Entry
msei00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Mycolicibacterium sediminis
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
msei00020  Citrate cycle (TCA cycle)
msei00020

Module
msei_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:msei00020]
msei_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:msei00020]
msei_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:msei00020]
msei_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:msei00020]
msei_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:msei00020]
Other DBs
GO: 0006099
Organism
Mycolicibacterium sediminis [GN:msei]
Gene
MSEDJ_59790  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
MSEDJ_59840  citrate synthase [KO:K01647] [EC:2.3.3.1]
MSEDJ_38300  acnA; aconitate hydratase A [KO:K01681] [EC:4.2.1.3]
MSEDJ_25550  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
MSEDJ_53210  kgd; multifunctional 2-oxoglutarate metabolism enzyme [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
MSEDJ_19840  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MSEDJ_49000  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
MSEDJ_48990  orB; 2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
MSEDJ_58420  sucD; succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
MSEDJ_58430  sucC; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
MSEDJ_16430  sdhA_1; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MSEDJ_26130  sdhA_2; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MSEDJ_16420  fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MSEDJ_26120  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MSEDJ_26150  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
MSEDJ_26140  putative succinate dehydrogenase, hydrophobic membrane anchor protein SdhD [KO:K00242]
MSEDJ_09970  fumC_1; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
MSEDJ_55070  fumC_2; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
MSEDJ_27000  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
MSEDJ_34740  mqo; putative malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
MSEDJ_33700  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
MSEDJ_15110  pckG; phosphoenolpyruvate carboxykinase [GTP] [KO:K01596] [EC:4.1.1.32]
MSEDJ_41050  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
MSEDJ_47200  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
MSEDJ_46820  hypothetical protein [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
msei00010  Glycolysis / Gluconeogenesis
msei00053  Ascorbate and aldarate metabolism
msei00061  Fatty acid biosynthesis
msei00071  Fatty acid degradation
msei00190  Oxidative phosphorylation
msei00220  Arginine biosynthesis
msei00250  Alanine, aspartate and glutamate metabolism
msei00280  Valine, leucine and isoleucine degradation
msei00350  Tyrosine metabolism
msei00470  D-Amino acid metabolism
msei00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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