KEGG   PATHWAY: ncol00900
Entry
ncol00900                   Pathway                                
Name
Terpenoid backbone biosynthesis - Nymphaea colorata (blue-petal water lily)
Description
Terpenoids, also known as isoprenoids, are a large class of natural products consisting of isoprene (C5) units. There are two biosynthetic pathways, the mevalonate pathway [MD:M00095] and the non-mevalonate pathway or the MEP/DOXP pathway [MD:M00096], for the terpenoid building blocks: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). The action of prenyltransferases then generates higher-order building blocks: geranyl diphosphate (GPP), farsenyl diphosphate (FPP), and geranylgeranyl diphosphate (GGPP), which are the precursors of monoterpenoids (C10), sesquiterpenoids (C15), and diterpenoids (C20), respectively. Condensation of these building blocks gives rise to the precursors of sterols (C30) and carotenoids (C40). The MEP/DOXP pathway is absent in higher animals and fungi, but in green plants the MEP/DOXP and mevalonate pathways co-exist in separate cellular compartments. The MEP/DOXP pathway, operating in the plastids, is responsible for the formation of essential oil monoterpenes and linalyl acetate, some sesquiterpenes, diterpenes, and carotenoids and phytol. The mevalonate pathway, operating in the cytosol, gives rise to triterpenes, sterols, and most sesquiterpenes.
Class
Metabolism; Metabolism of terpenoids and polyketides
Pathway map
ncol00900  Terpenoid backbone biosynthesis
ncol00900

Module
ncol_M00095  C5 isoprenoid biosynthesis, mevalonate pathway [PATH:ncol00900]
ncol_M00096  C5 isoprenoid biosynthesis, non-mevalonate pathway [PATH:ncol00900]
ncol_M00366  C10-C20 isoprenoid biosynthesis, plants [PATH:ncol00900]
Other DBs
GO: 0009240 0016091
Organism
Nymphaea colorata (blue-petal water lily) [GN:ncol]
Gene
116261545  probable 1-deoxy-D-xylulose-5-phosphate synthase 2, chloroplastic [KO:K01662] [EC:2.2.1.7]
116254673  probable 1-deoxy-D-xylulose-5-phosphate synthase, chloroplastic [KO:K01662] [EC:2.2.1.7]
116256111  probable 1-deoxy-D-xylulose-5-phosphate synthase, chloroplastic isoform X1 [KO:K01662] [EC:2.2.1.7]
116261008  1-deoxy-D-xylulose 5-phosphate reductoisomerase, chloroplastic [KO:K00099] [EC:1.1.1.267]
116257556  2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic isoform X1 [KO:K00991] [EC:2.7.7.60]
116261511  4-diphosphocytidyl-2-C-methyl-D-erythritol kinase, chloroplastic [KO:K00919] [EC:2.7.1.148]
116259930  2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic [KO:K01770] [EC:4.6.1.12]
116265534  4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic [KO:K03526] [EC:1.17.7.1 1.17.7.3]
116250448  4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic-like [KO:K03527] [EC:1.17.7.4]
116253574  4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic-like [KO:K03527] [EC:1.17.7.4]
116250856  probable acetyl-CoA acetyltransferase, cytosolic 2 [KO:K00626] [EC:2.3.1.9]
116259146  acetyl-CoA acetyltransferase, cytosolic 1-like [KO:K00626] [EC:2.3.1.9]
116260790  hydroxymethylglutaryl-CoA synthase-like [KO:K01641] [EC:2.3.3.10]
116244767  uncharacterized protein LOC116244767 [KO:K01641] [EC:2.3.3.10]
116248050  hydroxymethylglutaryl-CoA synthase-like isoform X1 [KO:K01641] [EC:2.3.3.10]
116256633  3-hydroxy-3-methylglutaryl-coenzyme A reductase 3-like [KO:K00021] [EC:1.1.1.34]
116259657  3-hydroxy-3-methylglutaryl-coenzyme A reductase 1-like [KO:K00021] [EC:1.1.1.34]
116259825  mevalonate kinase [KO:K00869] [EC:2.7.1.36]
116265516  phosphomevalonate kinase, peroxisomal [KO:K00938] [EC:2.7.4.2]
116246404  diphosphomevalonate decarboxylase MVD2, peroxisomal-like [KO:K01597] [EC:4.1.1.33]
116268168  isopentenyl phosphate kinase isoform X1 [KO:K06981] [EC:2.7.4.26]
116257507  isopentenyl phosphate kinase isoform X1 [KO:K06981] [EC:2.7.4.26]
116250258  isopentenyl-diphosphate Delta-isomerase I [KO:K01823] [EC:5.3.3.2]
116259007  farnesyl pyrophosphate synthase-like [KO:K00787] [EC:2.5.1.1 2.5.1.10]
116254813  solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like isoform X1 [KO:K14066] [EC:2.5.1.1]
116248043  solanesyl diphosphate synthase 3, chloroplastic/mitochondrial-like isoform X1 [KO:K14066] [EC:2.5.1.1]
116250174  geranylgeranyl pyrophosphate synthase, chloroplastic-like [KO:K13789] [EC:2.5.1.1 2.5.1.10 2.5.1.29]
116252888  geranylgeranyl pyrophosphate synthase 7, chloroplastic-like isoform X1 [KO:K13789] [EC:2.5.1.1 2.5.1.10 2.5.1.29]
116252889  heterodimeric geranylgeranyl pyrophosphate synthase large subunit 1, chloroplastic-like isoform X2 [KO:K13789] [EC:2.5.1.1 2.5.1.10 2.5.1.29]
116264515  heterodimeric geranylgeranyl pyrophosphate synthase small subunit, chloroplastic-like [KO:K13789] [EC:2.5.1.1 2.5.1.10 2.5.1.29]
116259822  heterodimeric geranylgeranyl pyrophosphate synthase small subunit, chloroplastic [KO:K13789] [EC:2.5.1.1 2.5.1.10 2.5.1.29]
116264365  solanesyl-diphosphate synthase 2, chloroplastic-like isoform X1 [KO:K05356] [EC:2.5.1.84 2.5.1.85]
116249055  solanesyl-diphosphate synthase 2, chloroplastic-like [KO:K05356] [EC:2.5.1.84 2.5.1.85]
116249722  uncharacterized protein LOC116249722 isoform X1 [KO:K11778] [EC:2.5.1.87]
116260736  uncharacterized protein LOC116260736 isoform X1 [KO:K11778] [EC:2.5.1.87]
116253399  dehydrodolichyl diphosphate synthase CPT3-like [KO:K11778] [EC:2.5.1.87]
116256105  uncharacterized protein LOC116256105 isoform X1 [KO:K11778] [EC:2.5.1.87]
116248620  dehydrodolichyl diphosphate synthase CPT3-like [KO:K11778] [EC:2.5.1.87]
116260010  uncharacterized protein LOC116260010 [KO:K11778] [EC:2.5.1.87]
116252913  geranylgeranyl diphosphate reductase, chloroplastic [KO:K10960] [EC:1.3.1.83 1.3.1.111]
116253458  uncharacterized protein LOC116253458 [KO:K10960] [EC:1.3.1.83 1.3.1.111]
116248626  protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha [KO:K05955] [EC:2.5.1.58 2.5.1.59]
116260174  protein farnesyltransferase subunit beta [KO:K05954] [EC:2.5.1.58]
116264042  CAAX prenyl protease 2 isoform X1 [KO:K08658] [EC:3.4.26.1]
116261056  CAAX prenyl protease 1 homolog [KO:K06013] [EC:3.4.24.84]
116246138  probable protein-S-isoprenylcysteine O-methyltransferase isoform X1 [KO:K00587] [EC:2.1.1.100]
116263063  isoprenylcysteine alpha-carbonyl methylesterase ICME-like isoform X1 [KO:K15889] [EC:3.1.1.-]
116259096  probable isoprenylcysteine alpha-carbonyl methylesterase ICMEL2 isoform X1 [KO:K15889] [EC:3.1.1.-]
116266860  farnesylcysteine lyase [KO:K05906] [EC:1.8.3.5 1.8.3.6]
116261978  uncharacterized protein LOC116261978 [KO:K15891] [EC:1.1.1.354]
116262597  pentatricopeptide repeat-containing protein At5g55740, chloroplastic-like [KO:K15891] [EC:1.1.1.354]
116262082  probable phytol kinase 2, chloroplastic [KO:K15892] [EC:2.7.1.216]
116262083  probable phytol kinase 2, chloroplastic isoform X1 [KO:K15892] [EC:2.7.1.216]
Compound
C00022  Pyruvate
C00024  Acetyl-CoA
C00118  D-Glyceraldehyde 3-phosphate
C00129  Isopentenyl diphosphate
C00235  Dimethylallyl diphosphate
C00332  Acetoacetyl-CoA
C00341  Geranyl diphosphate
C00353  Geranylgeranyl diphosphate
C00356  (S)-3-Hydroxy-3-methylglutaryl-CoA
C00418  (R)-Mevalonate
C00448  trans,trans-Farnesyl diphosphate
C01107  (R)-5-Phosphomevalonate
C01126  (2E,6E)-Farnesol
C01143  (R)-5-Diphosphomevalonate
C01230  all-trans-Hexaprenyl diphosphate
C02321  cis-1,4-Polyisoprene
C03461  2-trans,6-trans-Farnesal
C04145  all-trans-Nonaprenyl diphosphate
C04146  all-trans-Octaprenyl diphosphate
C04216  all-trans-Heptaprenyl diphosphate
C04506  Protein C-terminal S-farnesyl-L-cysteine
C04574  di-trans,poly-cis-Undecaprenyl diphosphate
C04748  Protein C-terminal S-farnesyl-L-cysteine methyl ester
C05427  Phytyl diphosphate
C05859  ditrans,polycis-Polyprenyl diphosphate
C06081  Polyprenol
C11434  2-C-Methyl-D-erythritol 4-phosphate
C11435  4-(Cytidine 5'-diphospho)-2-C-methyl-D-erythritol
C11436  2-Phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol
C11437  1-Deoxy-D-xylulose 5-phosphate
C11453  2-C-Methyl-D-erythritol 2,4-cyclodiphosphate
C11811  1-Hydroxy-2-methyl-2-butenyl 4-diphosphate
C16521  Isoprene
C16826  2-cis,6-trans-Farnesyl diphosphate
C17432  all-trans-Decaprenyl diphosphate
C18321  trans,octacis-Decaprenyl diphosphate
C19691  Farnesylcysteine
C19760  2-cis,6-cis-Farnesyl diphosphate
C19852  tritrans,heptacis-Undecaprenyl diphosphate
C19853  trans,polycis-Polyprenyl diphosphate
C20120  S-Farnesyl protein
C20121  trans,trans-Farnesyl phosphate
C20345  Isopentenyl phosphate
C20847  (R)-Mevalonate 3-phosphate
C20848  (R)-Mevalonate 3,5-bisphosphate
C22453  trans-Anhydromevalonate 5-phosphate
Reference
  Authors
Lange BM, Ghassemian M.
  Title
Genome organization in Arabidopsis thaliana: a survey for genes involved in isoprenoid and chlorophyll metabolism.
  Journal
Plant Mol Biol 51:925-48 (2003)
DOI:10.1023/A:1023005504702
Reference
  Authors
Saiki R, Nagata A, Kainou T, Matsuda H, Kawamukai M
  Title
Characterization of solanesyl and decaprenyl diphosphate synthases in mice and humans.
  Journal
FEBS J 272:5606-22 (2005)
DOI:10.1111/j.1742-4658.2005.04956.x
Reference
PMID:9858571
  Authors
Sato M, Sato K, Nishikawa S, Hirata A, Kato J, Nakano A
  Title
The yeast RER2 gene, identified by endoplasmic reticulum protein localization mutations, encodes cis-prenyltransferase, a key enzyme in dolichol synthesis.
  Journal
Mol Cell Biol 19:471-83 (1999)
DOI:10.1128/MCB.19.1.471
Reference
  Authors
Vannice JC, Skaff DA, Keightley A, Addo JK, Wyckoff GJ, Miziorko HM
  Title
Identification in Haloferax volcanii of phosphomevalonate decarboxylase and isopentenyl phosphate kinase as catalysts of the terminal enzyme reactions in an  archaeal alternate mevalonate pathway.
  Journal
J Bacteriol 196:1055-63 (2014)
DOI:10.1128/JB.01230-13
Related
pathway
ncol00010  Glycolysis / Gluconeogenesis
ncol00100  Steroid biosynthesis
ncol00130  Ubiquinone and other terpenoid-quinone biosynthesis
ncol00270  Cysteine and methionine metabolism
ncol00510  N-Glycan biosynthesis
ncol00904  Diterpenoid biosynthesis
ncol00906  Carotenoid biosynthesis
ncol00908  Zeatin biosynthesis
ncol00909  Sesquiterpenoid and triterpenoid biosynthesis
KO pathway
ko00900   
LinkDB

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