KEGG   PATHWAY: pbk00020
Entry
pbk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paenibacillus baekrokdamisoli
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
pbk00020  Citrate cycle (TCA cycle)
pbk00020

Module
pbk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pbk00020]
pbk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pbk00020]
pbk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pbk00020]
pbk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pbk00020]
Other DBs
GO: 0006099
Organism
Paenibacillus baekrokdamisoli [GN:pbk]
Gene
Back11_28210  citZ; citrate synthase 2 [KO:K01647] [EC:2.3.3.1]
Back11_40330  citB; aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Back11_28200  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
Back11_21100  odhA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
Back11_21090  odhB; dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
Back11_03250  pdhD_1; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Back11_12630  pdhD_2; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Back11_24230  bfmBC_1; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Back11_55870  bfmBC_2; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Back11_21370  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Back11_21360  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Back11_22320  sucD; succinate--CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
Back11_22330  sucC; succinate--CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
Back11_29750  sdhA_2; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Back11_29740  sdhB_2; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
Back11_29760  succinate dehydrogenase cytochrome B558 [KO:K00241]
Back11_00830  fumA; fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
Back11_62400  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
Back11_28190  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Back11_15270  mqo; putative malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Back11_12600  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
Back11_12610  pdhB; pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
Back11_55880  dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
Back11_12620  dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
Back11_12830  hypothetical protein [KO:K00169] [EC:1.2.7.1]
Back11_12820  pyruvate ferredoxin oxidoreductase subunit gamma/delta [KO:K00172] [EC:1.2.7.1]
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
pbk00010  Glycolysis / Gluconeogenesis
pbk00053  Ascorbate and aldarate metabolism
pbk00061  Fatty acid biosynthesis
pbk00071  Fatty acid degradation
pbk00190  Oxidative phosphorylation
pbk00220  Arginine biosynthesis
pbk00250  Alanine, aspartate and glutamate metabolism
pbk00280  Valine, leucine and isoleucine degradation
pbk00350  Tyrosine metabolism
pbk00470  D-Amino acid metabolism
pbk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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