KEGG   PATHWAY: nmar00020
Entry
nmar00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Nocardioides marmotae
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
nmar00020  Citrate cycle (TCA cycle)
nmar00020

Module
nmar_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:nmar00020]
nmar_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:nmar00020]
nmar_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nmar00020]
nmar_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:nmar00020]
nmar_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nmar00020]
Other DBs
GO: 0006099
Organism
Nocardioides marmotae [GN:nmar]
Gene
HPC71_03060  citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
HPC71_17255  citrate synthase [KO:K01647] [EC:2.3.3.1]
HPC71_18815  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
HPC71_08895  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
HPC71_16855  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HPC71_15070  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]
HPC71_13220  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HPC71_16560  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HPC71_02245  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
HPC71_02240  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
HPC71_16915  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HPC71_16920  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HPC71_16800  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HPC71_16805  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HPC71_16795  succinate dehydrogenase cytochrome b subunit [KO:K00241]
HPC71_04755  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HPC71_04740  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HPC71_16870  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HPC71_01385  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
HPC71_16520  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
HPC71_00570  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
HPC71_14085  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
HPC71_02665  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [KO:K00627] [EC:2.3.1.12]
HPC71_13225  sucB; 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [KO:K00627] [EC:2.3.1.12]
HPC71_19705  2-oxo acid dehydrogenase subunit E2 [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
nmar00010  Glycolysis / Gluconeogenesis
nmar00053  Ascorbate and aldarate metabolism
nmar00061  Fatty acid biosynthesis
nmar00071  Fatty acid degradation
nmar00190  Oxidative phosphorylation
nmar00220  Arginine biosynthesis
nmar00250  Alanine, aspartate and glutamate metabolism
nmar00280  Valine, leucine and isoleucine degradation
nmar00350  Tyrosine metabolism
nmar00470  D-Amino acid metabolism
nmar00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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