Pathways Knowlegdes

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Pathway DOIs Note
glycolysis II (from fructose 6-phosphate)

Accession ID: BioCyc:META_PWY-5484		 -
tetrathionate oxidation

Accession ID: BioCyc:META_PWY-6327
  • 10.1016/j.jbiotec.2007.08.030
 Kanao T, Kamimura K, Sugio T. Identification of a gene encoding a tetrathionate hydrolase in Acidithiobacillus ferrooxidans. J Biotechnol. 2007 Oct 15;132(1):16–22. doi: 10.1016/j.jbiotec.2007.08.030. PMID: 17904676.
indole glucosinolate activation (intact plant cell)

Accession ID: BioCyc:META_PWYQT-4477
  • 10.1111/j.1365-313x.2008.03476.x
  • 10.1126/science.1163732
 Bednarek P, Pislewska-Bednarek M, Svatos A, Schneider B, Doubsky J, Mansurova M, Humphry M, Consonni C, Panstruga R, Sanchez-Vallet A, Molina A, Schulze-Lefert P. A glucosinolate metabolism pathway in living plant cells mediates broad-spectrum antifungal defense. Science. 2009 Jan 02;323(5910):101–6. doi: 10.1126/science.1163732. PMID: 19095900.; Kim JH, Lee BW, Schroeder FC, Jander G. Identification of indole glucosinolate breakdown products with antifeedant effects on Myzus persicae (green peach aphid). The Plant Journal. 2008 Mar 12;54(6):1015–26. doi: 10.1111/j.1365-313x.2008.03476.x.
dissimilatory sulfate reduction II (to thiosulfate)

Accession ID: BioCyc:META_P224-PWY
  • 10.1128/jb.132.1.132-138.1977
 Drake HL, Akagi JM. Characterization of a novel thiosulfate-forming enzyme isolated from Desulfovibrio vulgaris. J Bacteriol. 1977 Oct;132(1):132–8. doi: 10.1128/jb.132.1.132-138.1977.; Kobayashi K, Tachibana S, Ishimoto M. Intermediary formation of trithionate in sulfite reduction by a sulfate-reducing bacterium. J Biochem. 1969 Jan;65(1):155–7. PMID: 5771706.
assimilatory sulfate reduction I

Accession ID: BioCyc:ECO_SO4ASSIM-PWY		 -
superpathway of hexitol degradation (bacteria)

Accession ID: BioCyc:ECO_HEXITOLDEGSUPER-PWY		 -
superpathway of pyrimidine deoxyribonucleosides degradation

Accession ID: BioCyc:ECO_PWY0-1298		 -
glycolysis II (from fructose 6-phosphate)

Accession ID: BioCyc:ECO_PWY-5484		 -
sulfate reduction I (assimilatory)

Accession ID: BioCyc:YEAST_SO4ASSIM-PWY		 -
sulfite oxidation IV

Accession ID: BioCyc:ARA_PWY-5326
  • 10.1007/s11120-005-5221-x
  • 10.1074/jbc.m108078200
  • 10.1074/jbc.m513054200
  • 10.1080/07315724.1995.10718500
  • 10.1093/pcp/pch212
 Hänsch R, Lang C, Riebeseel E, Lindigkeit R, Gessler A, Rennenberg H, Mendel RR. Plant sulfite oxidase as novel producer of H2O2: combination of enzyme catalysis with a subsequent non-enzymatic reaction step. J Biol Chem. 2006 Mar 10;281(10):6884–8. doi: 10.1074/jbc.m513054200. PMID: 16407262.; Hänsch R, Mendel RR. Sulfite oxidation in plant peroxisomes. Photosynth Res. 2005 Dec;86(3):337–43. doi: 10.1007/s11120-005-5221-x. PMID: 16307306.; Nowak K, Luniak N, Witt C, Wüstefeld Y, Wachter A, Mendel RR, Hänsch R. Peroxisomal localization of sulfite oxidase separates it from chloroplast-based sulfur assimilation. Plant Cell Physiol. 2004 Dec;45(12):1889–94. doi: 10.1093/pcp/pch212. PMID: 15653809.; Eilers T, Schwarz G, Brinkmann H, Witt C, Richter T, Nieder J, Koch B, Hille R, Hänsch R, Mendel RR. Identification and biochemical characterization of Arabidopsis thaliana sulfite oxidase. A new player in plant sulfur metabolism. J Biol Chem. 2001 Dec 14;276(50):46989–94. doi: 10.1074/jbc.m108078200. PMID: 11598126.; Lester MR. Sulfite sensitivity: significance in human health. Journal of the American College of Nutrition. 1995 Jun;14(3):229–32. doi: 10.1080/07315724.1995.10718500.
molybdenum cofactor biosynthesis

Accession ID: BioCyc:ARA_PWY-6823
  • 10.1016/s0021-9258(19)38677-6
  • 10.1074/jbc.m105321200
  • 10.1074/jbc.m109.082172
  • 10.1146/annurev.arplant.57.032905.105437
 Zhang W, Urban A, Mihara H, Leimkühler S, Kurihara T, Esaki N. IscS Functions as a Primary Sulfur-donating Enzyme by Interacting Specifically with MoeB and MoaD in the Biosynthesis of Molybdopterin in Escherichia coli. Journal of Biological Chemistry. 2010 Jan;285(4):2302–8. doi: 10.1074/jbc.m109.082172.; Schwarz G, Mendel RR. Molybdenum cofactor biosynthesis and molybdenum enzymes. Annu Rev Plant Biol. 2006;57():623–47. doi: 10.1146/annurev.arplant.57.032905.105437. PMID: 16669776.; Gutzke G, Fischer B, Mendel RR, Schwarz G. Thiocarboxylation of Molybdopterin Synthase Provides Evidence for the Mechanism of Dithiolene Formation in Metal-binding Pterins. Journal of Biological Chemistry. 2001 Sep;276(39):36268–74. doi: 10.1074/jbc.m105321200.; Pitterle DM, Rajagopalan KV. The biosynthesis of molybdopterin in Escherichia coli. Purification and characterization of the converting factor. Journal of Biological Chemistry. 1993 Jun;268(18):13499–505. doi: 10.1016/s0021-9258(19)38677-6.
sulfate reduction II (assimilatory)

Accession ID: BioCyc:ARA_SULFMETII-PWY
  • 10.1006/abbi.2001.2453
  • 10.1007/s11120-005-8810-9
  • 10.1073/pnas.94.20.11102
  • 10.1093/pcp/pce146
 Wirtz M, Droux M. Synthesis of the sulfur amino acids: cysteine and methionine. Photosynth Res. 2005 Dec;86(3):345–62. doi: 10.1007/s11120-005-8810-9. PMID: 16307301.; Suzuki A, Shirata Y, Ishida H, Chiba Y, Onouchi H, Naito S. The first exon coding region of cystathionine gamma-synthase gene is necessary and sufficient for downregulation of its own mRNA accumulation in transgenic Arabidopsis thaliana. Plant Cell Physiol. 2001 Oct;42(10):1174–80. doi: 10.1093/pcp/pce146. PMID: 11673634.; Lillig CH, Schiffmann S, Berndt C, Berken A, Tischka R, Schwenn JD. Molecular and Catalytic Properties of Arabidopsis thaliana Adenylyl Sulfate (APS)-Kinase. Archives of Biochemistry and Biophysics. 2001 Aug;392(2):303–10. doi: 10.1006/abbi.2001.2453.; Takahashi H, Yamazaki M, Sasakura N, Watanabe A, Leustek T, Engler JDA, Engler G, Van Montagu M, Saito K. Regulation of sulfur assimilation in higher plants: A sulfate transporter induced in sulfate-starved roots plays a central role in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A. 1997 Sep 30;94(20):11102–7. doi: 10.1073/pnas.94.20.11102.
indole glucosinolate activation (herbivore attack)

Accession ID: BioCyc:ARA_PWYQT-4476
  • 10.1111/j.1365-313x.2008.03476.x
 Kim JH, Lee BW, Schroeder FC, Jander G. Identification of indole glucosinolate breakdown products with antifeedant effects on Myzus persicae (green peach aphid). The Plant Journal. 2008 Mar 12;54(6):1015–26. doi: 10.1111/j.1365-313x.2008.03476.x.
sulfate activation for sulfonation

Accession ID: BioCyc:MTBH37RV_PWY-5340		 -
superpathway of sulfate assimilation and cysteine biosynthesis

Accession ID: BioCyc:MTBCDC1551_SULFATE-CYS-PWY		 -
sulfate reduction I (assimilatory)

Accession ID: BioCyc:ECOL199310_SO4ASSIM-PWY		 -
sulfate activation for sulfonation

Accession ID: BioCyc:ANTHRA_PWY-5340		 -
choline-O-sulfate degradation

Accession ID: BioCyc:AGRO_P542-PWY		 -
superpathway of methionine degradation

Accession ID: BioCyc:MOUSE_PWY-5328		 -
dermatan sulfate degradation (metazoa)

Accession ID: BioCyc:MOUSE_PWY-6576		 -