Pathways Knowlegdes

Necessitatibus eius consequatur ex aliquid fuga eum quidem sint consectetur velit

Pathway DOIs Note
heme degradation

Accession ID: BioCyc:FLY_PWY-5874		 -
phycocyanobilin biosynthesis

Accession ID: BioCyc:SYNEL_PWY-5917
  • 10.1105/tpc.13.4.965
 Frankenberg N, Mukougawa K, Kohchi T, Lagarias JC. Functional genomic analysis of the HY2 family of ferredoxin-dependent bilin reductases from oxygenic photosynthetic organisms. Plant Cell. 2001 Apr;13(4):965–78. PMID: 11283349; PMCID: PMC135530.
heme degradation

Accession ID: BioCyc:THAPS_PWY-5874		 -
methylthiopropionate biosynthesis

Accession ID: BioCyc:THAPS_PWY-5389		 -
hydrogen production VI

Accession ID: BioCyc:CLOSSAC_PWY-6780		 -
reductive acetyl coenzyme A pathway I (homoacetogenic bacteria)

Accession ID: BioCyc:PDIF272563_CODH-PWY		 -
reductive acetyl coenzyme A pathway

Accession ID: BioCyc:MSMI420247_CODH-PWY		 -
hydrogen to trimethylamine N-oxide electron transfer

Accession ID: BioCyc:META_PWY0-1578
  • 10.1007/bf00249179
 Wissenbach U, Kröger A, Unden G. The specific functions of menaquinone and demethylmenaquinone in anaerobic respiration with fumarate, dimethylsulfoxide, trimethylamine N-oxide and nitrate by Escherichia coli. Arch Microbiol. 1990;154(1):60–6. doi: 10.1007/bf00249179. PMID: 2204318.
juvenile hormone III biosynthesis I

Accession ID: BioCyc:META_PWY-6575
  • 10.1002/arch.20207
  • 10.1016/0024-3205(75)90479-8
  • 10.1016/j.abb.2005.08.006
  • 10.1016/j.bbrc.2009.01.079
  • 10.1073/pnas.0306980101
  • 10.1104/pp.010264
  • 10.1111/j.1432-1033.1981.tb06391.x
 Cao L, Zhang P, Grant DF. An insect farnesyl phosphatase homologous to the N-terminal domain of soluble epoxide hydrolase. Biochemical and Biophysical Research Communications. 2009 Feb;380(1):188–92. doi: 10.1016/j.bbrc.2009.01.079.; Li X. Juvenile hormone and methyl farnesoate production in cockroach embryos in relation to dorsal closure and the reproductive modes of different species of cockroaches. Arch Insect Biochem Physiol. 2007 Dec;66(4):159–68. doi: 10.1002/arch.20207. PMID: 18000875.; Yang Y, Yuan JS, Ross J, Noel JP, Pichersky E, Chen F. An Arabidopsis thaliana methyltransferase capable of methylating farnesoic acid. Archives of Biochemistry and Biophysics. 2006 Apr;448(1-2):123–32. doi: 10.1016/j.abb.2005.08.006.; Helvig C, Koener JF, Unnithan GC, Feyereisen R. CYP15A1, the cytochrome P450 that catalyzes epoxidation of methyl farnesoate to juvenile hormone III in cockroach corpora allata. Proc. Natl. Acad. Sci. U.S.A. 2004 Mar 15;101(12):4024–9. doi: 10.1073/pnas.0306980101.; Bede JC, Teal PEA, Goodman WG, Tobe SS. Biosynthetic Pathway of Insect Juvenile Hormone III in Cell Suspension Cultures of the Sedge Cyperus iria. Plant Physiol. 2001 Oct 01;127(2):584–93. doi: 10.1104/pp.010264.; FEYEREISEN R, PRATT GE, HAMNETT AF. Enzymic Synthesis of Juvenile Hormone in Locust Corpora Allata: Evidence for a Microsomal Cytochrome P-450 Linked Methyl Farnesoate Epoxidase. European Journal of Biochemistry. 1981 Aug;118(2):231–8. doi: 10.1111/j.1432-1033.1981.tb06391.x.; Hammock BD. NADPH dependent epoxidation of methyl farnesoate to juvenile hormone in the cockroach Blaberus giganteus L. Life Sci. 1975 Aug 01;17(3):323–8. doi: 10.1016/0024-3205(75)90479-8. PMID: 1160503.
heme degradation I

Accession ID: BioCyc:META_PWY-5874
  • 10.1073/pnas.61.2.748
 Tenhunen R, Marver HS, Schmid R. The enzymatic conversion of heme to bilirubin by microsomal heme oxygenase. Proc Natl Acad Sci U S A. 1968 Oct;61(2):748–55. PMID: 4386763; PMCID: PMC225223.
acetylene degradation

Accession ID: BioCyc:META_P161-PWY		 -
phycoerythrobilin biosynthesis I

Accession ID: BioCyc:META_PWY-5915
  • 10.1105/tpc.13.4.965
 Frankenberg N, Mukougawa K, Kohchi T, Lagarias JC. Functional genomic analysis of the HY2 family of ferredoxin-dependent bilin reductases from oxygenic photosynthetic organisms. Plant Cell. 2001 Apr;13(4):965–78. PMID: 11283349; PMCID: PMC135530.
phycourobilin biosynthesis

Accession ID: BioCyc:META_PWY-7579
  • 10.1074/jbc.m809784200
 Blot N, Wu X, Thomas J, Zhang J, Garczarek L, Böhm S, Tu J, Zhou M, Plöscher M, Eichacker L, Partensky F, Scheer H, Zhao K. Phycourobilin in Trichromatic Phycocyanin from Oceanic Cyanobacteria Is Formed Post-translationally by a Phycoerythrobilin Lyase-Isomerase. Journal of Biological Chemistry. 2009 Apr;284(14):9290–8. doi: 10.1074/jbc.m809784200.
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis

Accession ID: BioCyc:META_PWY-6890
  • 10.1002/anie.201003419
  • 10.1128/jb.186.5.1571-1573.2004
 Chatterjee A, Hazra AB, Abdelwahed S, Hilmey DG, Begley TP. A “Radical Dance” in Thiamin Biosynthesis: Mechanistic Analysis of the Bacterial Hydroxymethylpyrimidine Phosphate Synthase. Angew Chem Int Ed. 2010 Sep 30;49(46):8653–6. doi: 10.1002/anie.201003419.; Park J, Burns K, Kinsland C, Begley TP. Characterization of Two Kinases Involved in Thiamine Pyrophosphate and Pyridoxal Phosphate Biosynthesis in Bacillus subtilis : 4-Amino-5-Hydroxymethyl-2-Methylpyrimidine Kinase and Pyridoxal Kinase. J Bacteriol. 2004 Mar;186(5):1571–3. doi: 10.1128/jb.186.5.1571-1573.2004.
gluconeogenesis II (Methanobacterium thermoautotrophicum)

Accession ID: BioCyc:META_PWY-6142
  • 10.1016/s0021-9258(19)75797-4
 Murakami H, Sly WS. Purification and characterization of human salivary carbonic anhydrase. Journal of Biological Chemistry. 1987 Jan;262(3):1382–8. doi: 10.1016/s0021-9258(19)75797-4.
ergosterol biosynthesis I

Accession ID: BioCyc:META_PWY-6075
  • 10.1093/oxfordjournals.jbchem.a131961
  • 10.1146/annurev.mi.49.100195.000523
 Parks LW, Casey WM. Physiological implications of sterol biosynthesis in yeast. Annu Rev Microbiol. 1995;49():95–116. doi: 10.1146/annurev.mi.49.100195.000523. PMID: 8561481.; Zhakovskaia ZA, Mikhailova NP, Kamilova TA, Ogorodnikova TE, V'iunov KA. [Characteristics of the final stages of ergosterol biosynthesis in Saccharomyces cerevisiae yeasts]. Izv Akad Nauk SSSR Biol. 1989 Jan;(1):95–101. PMID: 2654239.; Osumi T, Taketani S, Katsuki H, Kuhara T, Matsumoto I. Ergosterol biosynthesis in yeast. Pathways in the late stages and their variation under various conditions. J Biochem. 1978 Mar;83(3):681–91. doi: 10.1093/oxfordjournals.jbchem.a131961. PMID: 346585.
abietic acid biosynthesis

Accession ID: BioCyc:META_PWY-5411
  • 10.1073/pnas.0500825102
  • 10.1074/jbc.271.38.23262
  • 10.1146/annurev.arplant.52.1.689
 Ro D, Arimura G, Lau SYW, Piers E, Bohlmann J. Loblolly pine abietadienol/abietadienal oxidase PtAO (CYP720B1) is a multifunctional, multisubstrate cytochrome P450 monooxygenase. Proc. Natl. Acad. Sci. U.S.A. 2005 May 23;102(22):8060–5. doi: 10.1073/pnas.0500825102.; Trapp S, Croteau R. DEFENSIVE RESIN BIOSYNTHESIS IN CONIFERS. Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 2001 Jun;52(1):689–724. doi: 10.1146/annurev.arplant.52.1.689.; Vogel BS, Wildung MR, Vogel G, Croteau R. Abietadiene synthase from grand fir (Abies grandis). cDNA isolation, characterization, and bacterial expression of a bifunctional diterpene cyclase involved in resin acid biosynthesis. J Biol Chem. 1996 Sep 20;271(38):23262–8. doi: 10.1074/jbc.271.38.23262. PMID: 8798524.
superpathway of diterpene resin acids biosynthesis

Accession ID: BioCyc:META_PWY-5416
  • 10.1073/pnas.0500825102
  • 10.1146/annurev.arplant.52.1.689
 Ro D, Arimura G, Lau SYW, Piers E, Bohlmann J. Loblolly pine abietadienol/abietadienal oxidase PtAO (CYP720B1) is a multifunctional, multisubstrate cytochrome P450 monooxygenase. Proc. Natl. Acad. Sci. U.S.A. 2005 May 23;102(22):8060–5. doi: 10.1073/pnas.0500825102.; Trapp S, Croteau R. DEFENSIVE RESIN BIOSYNTHESIS IN CONIFERS. Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 2001 Jun;52(1):689–724. doi: 10.1146/annurev.arplant.52.1.689.
hydrogen production VI

Accession ID: BioCyc:META_PWY-6780
  • 10.1016/s0021-9258(18)55283-2
 Ensign SA, Ludden PW. Characterization of the CO oxidation/H2 evolution system of Rhodospirillum rubrum. Role of a 22-kDa iron-sulfur protein in mediating electron transfer between carbon monoxide dehydrogenase and hydrogenase. Journal of Biological Chemistry. 1991 Sep;266(27):18395–403. doi: 10.1016/s0021-9258(18)55283-2.
superpathway of ergosterol biosynthesis

Accession ID: BioCyc:YEAST_ERGOSTEROL-SYN-PWY		 -