KEGG   PATHWAY: mrf00020
Entry
mrf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Mycolicibacterium rufum
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
mrf00020  Citrate cycle (TCA cycle)
mrf00020

Module
mrf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:mrf00020]
mrf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:mrf00020]
mrf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:mrf00020]
mrf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:mrf00020]
mrf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:mrf00020]
Other DBs
GO: 0006099
Organism
Mycolicibacterium rufum [GN:mrf]
Gene
MJO55_22825  citrate synthase [KO:K01647] [EC:2.3.3.1]
MJO55_22845  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
MJO55_12440  aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
MJO55_13585  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
MJO55_20145  multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
MJO55_03160  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
MJO55_18040  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
MJO55_18035  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
MJO55_22220  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
MJO55_22225  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
MJO55_01330  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MJO55_06625  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
MJO55_01325  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MJO55_06620  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
MJO55_06635  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
MJO55_06630  succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
MJO55_21035  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
MJO55_14250  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
MJO55_10350  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
MJO55_09750  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
MJO55_01040  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
MJO55_16880  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
MJO55_05685  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
MJO55_05690  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
MJO55_05695  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
MJO55_16660  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
mrf00010  Glycolysis / Gluconeogenesis
mrf00053  Ascorbate and aldarate metabolism
mrf00061  Fatty acid biosynthesis
mrf00071  Fatty acid degradation
mrf00190  Oxidative phosphorylation
mrf00220  Arginine biosynthesis
mrf00250  Alanine, aspartate and glutamate metabolism
mrf00280  Valine, leucine and isoleucine degradation
mrf00350  Tyrosine metabolism
mrf00470  D-Amino acid metabolism
mrf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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