Pathways Knowlegdes
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| Pathway | DOIs | Note |
|---|---|---|
| sulfite oxidation Accession ID: BioCyc:HUMAN_PWY-5326 |
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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.; Johnson JL, Rajagopalan KV. Purification and properties of sulfite oxidase from human liver. J Clin Invest. 1976 Sep;58(3):543–50. PMID: 956383; PMCID: PMC333211. |
| superpathway of methionine degradation Accession ID: BioCyc:HUMAN_PWY-5328 |
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| sulfide oxidation IV (metazoa) Accession ID: BioCyc:HUMAN_PWY-7927 |
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| adenosine 5'-phosphoramidate biosynthesis Accession ID: BioCyc:META_PWY-6794 |
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Fankhauser H, Schiff JA, Garber LJ. Purification and properties of adenylyl sulphate:ammonia adenylyltransferase from Chlorella catalysing the formation of adenosine 5' -phosphoramidate from adenosine 5' -phosphosulphate and ammonia. Biochem J. 1981 Jun 01;195(3):545–60. PMID: 6274307; PMCID: PMC1162926. |
| assimilatory sulfate reduction II Accession ID: BioCyc:META_SULFMETII-PWY |
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Kopriva S, Koprivova A. Plant adenosine 5'-phosphosulphate reductase: the past, the present, and the future. J Exp Bot. 2004 Aug;55(404):1775–83. doi: 10.1093/jxb/erh185. PMID: 15208336.; Neumann S, Wynen A, Trüper HG, Dahl C. Characterization of the cys gene locus from Allochromatium vinosum indicates an unusual sulfate assimilation pathway. Mol Biol Rep. 2000 Mar;27(1):27–33. doi: 10.1023/a:1007058421714. PMID: 10939523. |
| superpathway of sulfate assimilation and cysteine biosynthesis Accession ID: BioCyc:META_SULFATE-CYS-PWY |
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| sulfur oxidation II (Fe+3-dependent) Accession ID: BioCyc:META_FESULFOX-PWY |
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Sugio T, Katagiri T, Moriyama M, Zh?n YL, Inagaki K, Tano T. Existence of a new type of sulfite oxidase which utilizes ferric ions as an electron acceptor in Thiobacillus ferrooxidans. Appl Environ Microbiol. 1988 Jan;54(1):153–7. doi: 10.1128/aem.54.1.153-157.1988. |
| dermatan sulfate degradation I (bacterial) Accession ID: BioCyc:META_PWY-7646 |
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Tkalec AL, Fink D, Blain F, Zhang-Sun G, Laliberte M, Bennett DC, Gu K, Zimmermann JJF, Su H. Isolation and Expression in Escherichia coli of cslA and cslB , Genes Coding for the Chondroitin Sulfate-Degrading Enzymes Chondroitinase AC and Chondroitinase B, Respectively, from Flavobacterium heparinum. Appl Environ Microbiol. 2000 Jan;66(1):29–35. doi: 10.1128/aem.66.1.29-35.2000.; Hamai A, Hashimoto N, Mochizuki H, Kato F, Makiguchi Y, Horie K, Suzuki S. Two distinct chondroitin sulfate ABC lyases. An endoeliminase yielding tetrasaccharides and an exoeliminase preferentially acting on oligosaccharides. J Biol Chem. 1997 Apr 04;272(14):9123–30. doi: 10.1074/jbc.272.14.9123. PMID: 9083041.; Yamagata T, Saito H, Habuchi O, Suzuki S. Purification and Properties of Bacterial Chondroitinases and Chondrosulfatases. Journal of Biological Chemistry. 1968 Apr;243(7):1523–35. doi: 10.1016/s0021-9258(18)93574-x. |
| chondroitin sulfate degradation I (bacterial) Accession ID: BioCyc:META_PWY-6572 |
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Tkalec AL, Fink D, Blain F, Zhang-Sun G, Laliberte M, Bennett DC, Gu K, Zimmermann JJF, Su H. Isolation and Expression in Escherichia coli of cslA and cslB , Genes Coding for the Chondroitin Sulfate-Degrading Enzymes Chondroitinase AC and Chondroitinase B, Respectively, from Flavobacterium heparinum. Appl Environ Microbiol. 2000 Jan;66(1):29–35. doi: 10.1128/aem.66.1.29-35.2000.; Hamai A, Hashimoto N, Mochizuki H, Kato F, Makiguchi Y, Horie K, Suzuki S. Two distinct chondroitin sulfate ABC lyases. An endoeliminase yielding tetrasaccharides and an exoeliminase preferentially acting on oligosaccharides. J Biol Chem. 1997 Apr 04;272(14):9123–30. doi: 10.1074/jbc.272.14.9123. PMID: 9083041.; Yamagata T, Saito H, Habuchi O, Suzuki S. Purification and Properties of Bacterial Chondroitinases and Chondrosulfatases. Journal of Biological Chemistry. 1968 Apr;243(7):1523–35. doi: 10.1016/s0021-9258(18)93574-x. |
| superpathway of N-acetylneuraminate degradation Accession ID: BioCyc:META_P441-PWY |
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Byers HL, Homer KA, Beighton D. Utilization of sialic acid by viridans streptococci. J Dent Res. 1996 Aug;75(8):1564–71. doi: 10.1177/00220345960750080701. PMID: 8906124. |
| superpathway of L-methionine biosynthesis (by sulfhydrylation) Accession ID: BioCyc:META_PWY-5345 |
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Vermeij P, Kertesz MA. Pathways of Assimilative Sulfur Metabolism in Pseudomonas putida. J Bacteriol. 1999 Sep 15;181(18):5833–7. doi: 10.1128/jb.181.18.5833-5837.1999. |
| dermatan sulfate degradation (metazoa) Accession ID: BioCyc:META_PWY-6576 |
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Trowbridge JM, Gallo RL. Dermatan sulfate: new functions from an old glycosaminoglycan. Glycobiology. 2002 Sep;12(9):117R–25R. doi: 10.1093/glycob/cwf066. PMID: 12213784. |
| sulfite oxidation III Accession ID: BioCyc:META_PWY-5278 |
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Kappler U, Dahl C. Enzymology and molecular biology of prokaryotic sulfite oxidation. FEMS Microbiol Lett. 2001 Sep 11;203(1):1–9. doi: 10.1111/j.1574-6968.2001.tb10813.x. PMID: 11557133. |
| sulfite oxidation II Accession ID: BioCyc:META_PWY-5279 |
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Kappler U, Dahl C. Enzymology and molecular biology of prokaryotic sulfite oxidation. FEMS Microbiol Lett. 2001 Sep 11;203(1):1–9. doi: 10.1111/j.1574-6968.2001.tb10813.x. PMID: 11557133. |
| superpathway of sulfide oxidation (Starkeya novella) Accession ID: BioCyc:META_PWY-5335 |
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Rohwerder T, Sand W. The sulfane sulfur of persulfides is the actual substrate of the sulfur-oxidizing enzymes from Acidithiobacillus and Acidiphilium spp. Microbiology (Reading). 2003 Jul;149(Pt 7):1699–710. doi: 10.1099/mic.0.26212-0. PMID: 12855721.; Kappler U, Bennett B, Rethmeier J, Schwarz G, Deutzmann R, McEwan AG, Dahl C. Sulfite:Cytochrome c oxidoreductase from Thiobacillus novellus. Purification, characterization, and molecular biology of a heterodimeric member of the sulfite oxidase family. J Biol Chem. 2000 May 05;275(18):13202–12. doi: 10.1074/jbc.275.18.13202. PMID: 10788424. |
| 2'-deoxy-α-D-ribose 1-phosphate degradation Accession ID: BioCyc:META_PWY-7180 |
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| indole glucosinolate activation (herbivore attack) Accession ID: BioCyc:META_PWYQT-4476 |
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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. |
| aromatic glucosinolate activation Accession ID: BioCyc:META_PWY-6684 |
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Burow M, Bergner A, Gershenzon J, Wittstock U. Glucosinolate hydrolysis in Lepidium sativum--identification of the thiocyanate-forming protein. Plant Mol Biol. 2007 Jan;63(1):49–61. doi: 10.1007/s11103-006-9071-5. PMID: 17139450. |
| superpathway of L-methionine salvage and degradation Accession ID: BioCyc:META_PWY-5328 |
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Finkelstein JD. Methionine metabolism in mammals. The Journal of Nutritional Biochemistry. 1990 May;1(5):228–37. doi: 10.1016/0955-2863(90)90070-2.; Paxton R, Scislowski PW, Davis EJ, Harris RA. Role of branched-chain 2-oxo acid dehydrogenase and pyruvate dehydrogenase in 2-oxobutyrate metabolism. Biochem J. 1986 Mar 01;234(2):295–303. PMID: 3718468; PMCID: PMC1146565. |
| sulfate activation for sulfonation Accession ID: BioCyc:ECO_PWY-5340 |
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