KEGG   PATHWAY: fcy00020
Entry
fcy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Fragilariopsis cylindrus
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
fcy00020  Citrate cycle (TCA cycle)
fcy00020

Module
fcy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:fcy00020]
Other DBs
GO: 0006099
Organism
Fragilariopsis cylindrus [GN:fcy]
Gene
FRACYDRAFT_224559  citrate synthase [KO:K01647] [EC:2.3.3.1]
FRACYDRAFT_212647  ATP-citrate synthase (ATP-citrate (pro-S-)-lyase-like protein) [KO:K01648] [EC:2.3.3.8]
FRACYDRAFT_232580  OGDC_1; 2-oxoglutarate dehydrogenase complex protein [KO:K00164] [EC:1.2.4.2]
FRACYDRAFT_271375  DLDH; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FRACYDRAFT_186500  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
FRACYDRAFT_269015  mitochondrial succinyl-CoA synthetase alpha subunit [KO:K01899] [EC:6.2.1.4 6.2.1.5]
FRACYDRAFT_276978  succinate-CoA ligase [KO:K01900] [EC:6.2.1.4 6.2.1.5]
FRACYDRAFT_226444  succinate-CoA ligase beta chain [KO:K01900] [EC:6.2.1.4 6.2.1.5]
FRACYDRAFT_173934  SDH5; succinate dehydrogenase [KO:K00234] [EC:1.3.5.1]
FRACYDRAFT_287448  SDH3; putative succinate dehydrogenase/fumarate reductase iron-sulfur protein [KO:K00235] [EC:1.3.5.1]
FRACYDRAFT_227880  DHSB_USTMA succinate dehydrogenase iron-sulfur protein mitochondrial precursor [KO:K00235] [EC:1.3.5.1]
FRACYDRAFT_271472  SDH1; succinate dehydrogenase cytochrome b subunit [KO:K00236]
FRACYDRAFT_209986  iron-dependent fumarate hydratase [KO:K01676] [EC:4.2.1.2]
FRACYDRAFT_208253  fumarase precursor [KO:K01679] [EC:4.2.1.2]
FRACYDRAFT_287426  MDH1; putative malate dehydrogenase [KO:K00026] [EC:1.1.1.37]
FRACYDRAFT_275301  MDH2; malate dehydrogenase [KO:K00026] [EC:1.1.1.37]
FRACYDRAFT_186955  PYC2; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
FRACYDRAFT_183259  PYC1; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
FRACYDRAFT_187383  PDHE1-A; pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
FRACYDRAFT_225175  Thiamin diphosphate-binding protein [KO:K00162] [EC:1.2.4.1]
FRACYDRAFT_267255  single hybrid motif-containing protein [KO:K00627] [EC:2.3.1.12]
FRACYDRAFT_180836  2-oxoacid_dh-domain-containing protein [KO:K00627] [EC:2.3.1.12]
FRACYDRAFT_166615  2-oxoacid_dh-domain-containing protein [KO:K00627] [EC:2.3.1.12]
FRACYDRAFT_170993  2-oxoacid_dh-domain-containing 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
fcy00010  Glycolysis / Gluconeogenesis
fcy00053  Ascorbate and aldarate metabolism
fcy00061  Fatty acid biosynthesis
fcy00062  Fatty acid elongation
fcy00071  Fatty acid degradation
fcy00190  Oxidative phosphorylation
fcy00220  Arginine biosynthesis
fcy00250  Alanine, aspartate and glutamate metabolism
fcy00280  Valine, leucine and isoleucine degradation
fcy00350  Tyrosine metabolism
fcy00470  D-Amino acid metabolism
fcy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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