KEGG   PATHWAY: pkf00020
Entry
pkf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paraburkholderia kirstenboschensis
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
pkf00020  Citrate cycle (TCA cycle)
pkf00020

Module
pkf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pkf00020]
pkf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pkf00020]
pkf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pkf00020]
pkf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pkf00020]
pkf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pkf00020]
Other DBs
GO: 0006099
Organism
Paraburkholderia kirstenboschensis [GN:pkf]
Gene
RW095_15715  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
RW095_02060  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
RW095_31470  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
RW095_15670  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
RW095_12235  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
RW095_15655  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
RW095_31395  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RW095_13100  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RW095_17360  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RW095_29595  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RW095_29590  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
RW095_25210  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RW095_29585  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RW095_32115  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
RW095_32120  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
RW095_09605  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
RW095_15700  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RW095_16495  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RW095_15705  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RW095_16490  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RW095_15690  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RW095_16505  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RW095_15695  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RW095_16500  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RW095_30835  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
RW095_06785  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RW095_23600  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RW095_15680  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RW095_35375  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
RW095_25200  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
RW095_25205  aceF; dihydrolipoyllysine-residue acetyltransferase [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
pkf00010  Glycolysis / Gluconeogenesis
pkf00053  Ascorbate and aldarate metabolism
pkf00061  Fatty acid biosynthesis
pkf00071  Fatty acid degradation
pkf00190  Oxidative phosphorylation
pkf00220  Arginine biosynthesis
pkf00250  Alanine, aspartate and glutamate metabolism
pkf00280  Valine, leucine and isoleucine degradation
pkf00350  Tyrosine metabolism
pkf00470  D-Amino acid metabolism
pkf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system