Pathways Knowlegdes

Necessitatibus eius consequatur ex aliquid fuga eum quidem sint consectetur velit

Pathway DOIs Note
berberine biosynthesis

Accession ID: BioCyc:META_PWY-3901
  • 10.1007/s00425-002-0867-5
  • 10.1046/j.1365-313x.1998.00220.x
  • 10.1074/jbc.m302470200
  • 10.1105/tpc.104.028654
  • 10.1146/annurev.arplant.52.1.29
 Samanani N, Park SU, Facchini PJ. Cell type-specific localization of transcripts encoding nine consecutive enzymes involved in protoberberine alkaloid biosynthesis. Plant Cell. 2005 Mar;17(3):915–26. PMID: 15722473; PMCID: PMC1069708.; Ikezawa N, Tanaka M, Nagayoshi M, Shinkyo R, Sakaki T, Inouye K, Sato F. Molecular Cloning and Characterization of CYP719, a Methylenedioxy Bridge-forming Enzyme That Belongs to a Novel P450 Family, from cultured Coptis japonica Cells. Journal of Biological Chemistry. 2003 Oct;278(40):38557–65. doi: 10.1074/jbc.m302470200.; Bock A, Wanner G, Zenk MH. Immunocytological localization of two enzymes involved in berberine biosynthesis. Planta. 2002 Nov;216(1):57–63. doi: 10.1007/s00425-002-0867-5. PMID: 12430014.; Facchini PJ. ALKALOIDBIOSYNTHESIS INPLANTS: Biochemistry, Cell Biology, Molecular Regulation, and Metabolic Engineering Applications. Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 2001 Jun;52(1):29–66. doi: 10.1146/annurev.arplant.52.1.29.; Chou W, Kutchan TM. Enzymatic oxidations in the biosynthesis of complex alkaloids. The Plant Journal. 1998 Aug;15(3):289–300. doi: 10.1046/j.1365-313x.1998.00220.x.
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation

Accession ID: BioCyc:META_PWY-6604
  • 10.1016/s0021-9258(18)65732-1
  • 10.1016/s0021-9258(18)71290-8
  • 10.1016/s0021-9258(18)71291-x
  • 10.1096/fasebj.9.9.7601336
 Thorpe C, Kim JP. Structure and mechanism of action of the Acyl-CoA dehydrogenases 1. The FASEB Journal. 1995 Jun;9(9):718–25. doi: 10.1096/fasebj.9.9.7601336.; Hauge JG, Crane FL, Beinert H. ON THE MECHANISM OF DEHYDROGENATION OF FATTY ACYL DERIVATIVES OF COENZYME A. Journal of Biological Chemistry. 1956 Apr;219(2):727–33. doi: 10.1016/s0021-9258(18)65732-1.; Green DE, Mii S, Mahler HR, Bock RM. STUDIES ON THE FATTY ACID OXIDIZING SYSTEM OF ANIMAL TISSUES. Journal of Biological Chemistry. 1954 Jan;206(1):1–12. doi: 10.1016/s0021-9258(18)71290-8.; MAHLER HR. Studies on the fatty acid oxidizing system of animal tissues. IV. The prosthetic group of butyryl coenzyme A dehydrogenase. J Biol Chem. 1954 Jan;206(1):13–26. PMID: 13130522.
pyruvate fermentation to acetone

Accession ID: BioCyc:META_PWY-6588
  • 10.1128/mmbr.50.4.484-524.1986
 Jones DT, Woods DR. Acetone-butanol fermentation revisited. Microbiol Rev. 1986 Dec;50(4):484–524. doi: 10.1128/mr.50.4.484-524.1986.
superpathway of Clostridium acetobutylicum solventogenic fermentation

Accession ID: BioCyc:META_PWY-6594
  • 10.1016/s0021-9258(18)65732-1
  • 10.1016/s0021-9258(18)71290-8
  • 10.1016/s0021-9258(18)71291-x
  • 10.1096/fasebj.9.9.7601336
  • 10.1128/mmbr.50.4.484-524.1986
 Thorpe C, Kim JP. Structure and mechanism of action of the Acyl-CoA dehydrogenases 1. The FASEB Journal. 1995 Jun;9(9):718–25. doi: 10.1096/fasebj.9.9.7601336.; Jones DT, Woods DR. Acetone-butanol fermentation revisited. Microbiol Rev. 1986 Dec;50(4):484–524. doi: 10.1128/mr.50.4.484-524.1986.; Hauge JG, Crane FL, Beinert H. ON THE MECHANISM OF DEHYDROGENATION OF FATTY ACYL DERIVATIVES OF COENZYME A. Journal of Biological Chemistry. 1956 Apr;219(2):727–33. doi: 10.1016/s0021-9258(18)65732-1.; Green DE, Mii S, Mahler HR, Bock RM. STUDIES ON THE FATTY ACID OXIDIZING SYSTEM OF ANIMAL TISSUES. Journal of Biological Chemistry. 1954 Jan;206(1):1–12. doi: 10.1016/s0021-9258(18)71290-8.; MAHLER HR. Studies on the fatty acid oxidizing system of animal tissues. IV. The prosthetic group of butyryl coenzyme A dehydrogenase. J Biol Chem. 1954 Jan;206(1):13–26. PMID: 13130522.
isopropanol biosynthesis (engineered)

Accession ID: BioCyc:META_PWY-6876
  • 10.1128/aem.01140-07
 Hanai T, Atsumi S, Liao JC. Engineered Synthetic Pathway for Isopropanol Production in Escherichia coli. Appl Environ Microbiol. 2007 Dec 15;73(24):7814–8. doi: 10.1128/aem.01140-07.
berberine biosynthesis

Accession ID: PlantCyc:PLANT_PWY-3901
  • 10.1007/s00425-002-0867-5
  • 10.1046/j.1365-313x.1998.00220.x
  • 10.1074/jbc.m302470200
  • 10.1105/tpc.104.028654
  • 10.1146/annurev.arplant.52.1.29
 Samanani N, Park SU, Facchini PJ. Cell type-specific localization of transcripts encoding nine consecutive enzymes involved in protoberberine alkaloid biosynthesis. Plant Cell. 2005 Mar;17(3):915–26. PMID: 15722473; PMCID: PMC1069708.; Ikezawa N, Tanaka M, Nagayoshi M, Shinkyo R, Sakaki T, Inouye K, Sato F. Molecular Cloning and Characterization of CYP719, a Methylenedioxy Bridge-forming Enzyme That Belongs to a Novel P450 Family, from cultured Coptis japonica Cells. Journal of Biological Chemistry. 2003 Oct;278(40):38557–65. doi: 10.1074/jbc.m302470200.; Bock A, Wanner G, Zenk MH. Immunocytological localization of two enzymes involved in berberine biosynthesis. Planta. 2002 Nov;216(1):57–63. doi: 10.1007/s00425-002-0867-5. PMID: 12430014.; Facchini PJ. ALKALOIDBIOSYNTHESIS INPLANTS: Biochemistry, Cell Biology, Molecular Regulation, and Metabolic Engineering Applications. Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 2001 Jun;52(1):29–66. doi: 10.1146/annurev.arplant.52.1.29.; Chou W, Kutchan TM. Enzymatic oxidations in the biosynthesis of complex alkaloids. The Plant Journal. 1998 Aug;15(3):289–300. doi: 10.1046/j.1365-313x.1998.00220.x.