KEGG   PATHWAY: fiy00020
Entry
fiy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Filomicrobium marinum Y
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
fiy00020  Citrate cycle (TCA cycle)
fiy00020

Module
fiy_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:fiy00020]
fiy_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:fiy00020]
fiy_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:fiy00020]
fiy_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:fiy00020]
fiy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:fiy00020]
Other DBs
GO: 0006099
Organism
Candidatus Filomicrobium marinum Y [GN:fiy]
Gene
BN1229_v1_2950  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
BN1229_v1_1092  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BN1229_v1_3230  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
BN1229_v1_1125  sucA; 2-oxoglutarate decarboxylase, thiamin-requiring [KO:K00164] [EC:1.2.4.2]
BN1229_v1_1126  sucB; dihydrolipoyltranssuccinase [KO:K00658] [EC:2.3.1.61]
BN1229_v1_2185  pdhL; Dihydrolipoamide dehydrogenase (E3) component ofpyruvate dehydrogenase [KO:K00382] [EC:1.8.1.4]
BN1229_v1_1127  lpd; Dihydrolipoyl dehydrogenase 3 [KO:K00382] [EC:1.8.1.4]
BN1229_v1_3569  sucD; succinyl-CoA synthetase, NAD(P)-binding, alpha subunit [KO:K01902] [EC:6.2.1.5]
BN1229_v1_3386  sucD; succinyl-CoA synthetase, NAD(P)-binding, alpha subunit [KO:K01902] [EC:6.2.1.5]
BN1229_v1_1124  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
BN1229_v1_0750  Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
BN1229_v1_3570  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
BN1229_v1_1123  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
BN1229_v1_1109  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BN1229_v1_1114  sdhB; succinate dehydrogenase, FeS subunit [KO:K00240] [EC:1.3.5.1]
BN1229_v1_1107  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
BN1229_v1_1108  Succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BN1229_v1_4004  fumC; fumarate hydratase (fumarase C),aerobic Class II [KO:K01679] [EC:4.2.1.2]
BN1229_v1_1122  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
BN1229_v1_1760  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
BN1229_v1_2183  aceE; pyruvate dehydrogenase, decarboxylase component E1, thiamin-binding [KO:K00163] [EC:1.2.4.1]
BN1229_v1_3102  putative Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
BN1229_v1_2184  pdhB; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
fiy00010  Glycolysis / Gluconeogenesis
fiy00053  Ascorbate and aldarate metabolism
fiy00061  Fatty acid biosynthesis
fiy00071  Fatty acid degradation
fiy00190  Oxidative phosphorylation
fiy00220  Arginine biosynthesis
fiy00250  Alanine, aspartate and glutamate metabolism
fiy00280  Valine, leucine and isoleucine degradation
fiy00350  Tyrosine metabolism
fiy00470  D-Amino acid metabolism
fiy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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