KEGG   PATHWAY: msm00020
Entry
msm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Mycolicibacterium smegmatis MC2 155
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
msm00020  Citrate cycle (TCA cycle)
msm00020

Module
msm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:msm00020]
msm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:msm00020]
msm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:msm00020]
msm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:msm00020]
msm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:msm00020]
Other DBs
GO: 0006099
Organism
Mycolicibacterium smegmatis MC2 155 [GN:msm]
Gene
MSMEG_5672  gltA; citrate synthase I [KO:K01647] [EC:2.3.3.1]
MSMEG_5676  citrate synthase [KO:K01647] [EC:2.3.3.1]
MSMEG_4035  citrate synthase [KO:K01647] [EC:2.3.3.1]
MSMEG_6647  citrate synthase 2 [KO:K01659] [EC:2.3.3.5]
MSMEG_3143  acnA; aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
MSMEG_1654  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
MSMEG_5049  sucA; 2-oxoglutarate dehydrogenase, E1 component [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
MSMEG_0903  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
MSMEG_4646  pyruvate synthase [KO:K00174] [EC:1.2.7.3 1.2.7.11]
MSMEG_4645  orB; alpha oxoglutarate ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
MSMEG_5524  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
MSMEG_5525  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
MSMEG_1670  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MSMEG_1693  succinate dehydrogenase [ubiquinone] flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MSMEG_0418  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MSMEG_1669  sdhB; succinate dehydrogenase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
MSMEG_0417  succinate dehydrogenase [KO:K00240] [EC:1.3.5.1]
MSMEG_1672  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
MSMEG_1671  succinate dehydrogenase hydrophobic membrane anchor protein SdhD [KO:K00242]
MSMEG_2985  fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
MSMEG_5240  fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
MSMEG_2613  mqo; malate:quinone-oxidoreductase [KO:K00116] [EC:1.1.5.4]
MSMEG_2412  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
MSMEG_6648  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
MSMEG_0255  phosphoenolpyruvate carboxykinase [KO:K01596] [EC:4.1.1.32]
MSMEG_4323  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
MSMEG_2471  pyruvate dehydrogenase alpha subunit [KO:K00163] [EC:1.2.4.1]
MSMEG_4283  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [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
msm00010  Glycolysis / Gluconeogenesis
msm00053  Ascorbate and aldarate metabolism
msm00061  Fatty acid biosynthesis
msm00071  Fatty acid degradation
msm00190  Oxidative phosphorylation
msm00220  Arginine biosynthesis
msm00250  Alanine, aspartate and glutamate metabolism
msm00280  Valine, leucine and isoleucine degradation
msm00350  Tyrosine metabolism
msm00470  D-Amino acid metabolism
msm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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