KEGG   PATHWAY: amav00020
Entry
amav00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Agromyces mangrovi
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
amav00020  Citrate cycle (TCA cycle)
amav00020

Module
amav_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:amav00020]
amav_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:amav00020]
amav_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:amav00020]
amav_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:amav00020]
amav_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:amav00020]
Other DBs
GO: 0006099
Organism
Agromyces mangrovi [GN:amav]
Gene
GCM10025877_03500  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
GCM10025877_17880  citrate synthase [KO:K01659] [EC:2.3.3.5]
GCM10025877_29100  citrate synthase [KO:K01659] [EC:2.3.3.5]
GCM10025877_00620  aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
GCM10025877_07170  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
GCM10025877_27790  kgd; alpha-ketoglutarate decarboxylase [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
GCM10025877_32530  pdhD; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GCM10025877_07330  sucD; succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
GCM10025877_07350  hypothetical protein [KO:K01903] [EC:6.2.1.5]
GCM10025877_26740  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GCM10025877_26730  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GCM10025877_26760  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
GCM10025877_26750  succinate dehydrogenase [KO:K00242]
GCM10025877_04410  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
GCM10025877_09260  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GCM10025877_26110  mqo; putative malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
GCM10025877_31310  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
GCM10025877_26560  pckG; phosphoenolpyruvate carboxykinase [GTP] [KO:K01596] [EC:4.1.1.32]
GCM10025877_32370  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
GCM10025877_32520  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
amav00010  Glycolysis / Gluconeogenesis
amav00053  Ascorbate and aldarate metabolism
amav00061  Fatty acid biosynthesis
amav00071  Fatty acid degradation
amav00190  Oxidative phosphorylation
amav00220  Arginine biosynthesis
amav00250  Alanine, aspartate and glutamate metabolism
amav00280  Valine, leucine and isoleucine degradation
amav00350  Tyrosine metabolism
amav00470  D-Amino acid metabolism
amav00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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