KEGG   PATHWAY: bamn00020
Entry
bamn00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Bacillus velezensis UCMB5113
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
bamn00020  Citrate cycle (TCA cycle)
bamn00020

Module
bamn_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bamn00020]
bamn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bamn00020]
bamn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bamn00020]
bamn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bamn00020]
bamn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bamn00020]
bamn_M00982  Methylcitrate cycle [PATH:bamn00020]
Other DBs
GO: 0006099
Organism
Bacillus velezensis UCMB5113 [GN:bamn]
Gene
BASU_0783  acoC; acetoin dehydrogenase E2 component (dihydrolipoamide acetyltransferase) [KO:K00627] [EC:2.3.1.12]
BASU_0784  acoL; Dihydrolipoamide dehydrogenase (acetoin dehydrogenase E3 component) [KO:K00382] [EC:1.8.1.4]
BASU_0909  citA; citrate synthase I [KO:K01647] [EC:2.3.3.1]
BASU_1404  pdhA; pyruvate dehydrogenase (E1 alpha subunit) [KO:K00161] [EC:1.2.4.1]
BASU_1405  pdhB; pyruvate dehydrogenase (E1 beta subunit) [KO:K00162] [EC:1.2.4.1]
BASU_1406  pdhC; pyruvate dehydrogenase (dihydrolipoamide acetyltransferase E2 subunit) [KO:K00627] [EC:2.3.1.12]
BASU_1407  pdhD; dihydrolipoamide dehydrogenase E3 subunit of both pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase complexes [KO:K00382] [EC:1.8.1.4]
BASU_1428  pycA; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
BASU_1548  sucC; succinyl-CoA synthetase (beta subunit) [KO:K01903] [EC:6.2.1.5]
BASU_1549  sucD; succinyl-CoA synthetase (alpha subunit) [KO:K01902] [EC:6.2.1.5]
BASU_1736  citB; aconitate hydratase (aconitase) [KO:K27802]
BASU_1862  odhB; 2-oxoglutarate dehydrogenase complex (dihydrolipoamide transsuccinylase, E2 subunit) [KO:K00658] [EC:2.3.1.61]
BASU_1863  odhA; 2-oxoglutarate dehydrogenase (E1 subunit) [KO:K00164] [EC:1.2.4.2]
BASU_2159  lpdV; branched-chain alpha-keto acid dehydrogenase E3 subunit (dihydrolipoamide dehydrogenase) [KO:K00382] [EC:1.8.1.4]
BASU_2167  mmgD; 2-methylcitrate synthase/citrate synthase III [KO:K01647] [EC:2.3.3.1]
BASU_2493  sdhB; succinate dehydrogenase (iron-sulfur protein) [KO:K00240] [EC:1.3.5.1]
BASU_2494  sdhA; succinate dehydrogenase (flavoprotein subunit) [KO:K00239] [EC:1.3.5.1]
BASU_2495  sdhC; succinate dehydrogenase (cytochrome b558 subunit) [KO:K00241]
BASU_2560  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BASU_2561  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
BASU_2562  citZ; citrate synthase II [KO:K01659] [EC:2.3.3.5]
BASU_2699  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
BASU_2934  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
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
bamn00010  Glycolysis / Gluconeogenesis
bamn00053  Ascorbate and aldarate metabolism
bamn00061  Fatty acid biosynthesis
bamn00071  Fatty acid degradation
bamn00190  Oxidative phosphorylation
bamn00220  Arginine biosynthesis
bamn00250  Alanine, aspartate and glutamate metabolism
bamn00280  Valine, leucine and isoleucine degradation
bamn00350  Tyrosine metabolism
bamn00470  D-Amino acid metabolism
bamn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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