Pathways Knowlegdes

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Pathway DOIs Note
D-galactose degradation I (Leloir pathway)

Accession ID: BioCyc:META_PWY-6317
  • 10.1096/fasebj.10.4.8647345
 Frey PA. The Leloir pathway: a mechanistic imperative for three enzymes to change the stereochemical configuration of a single carbon in galactose. The FASEB Journal. 1996 Mar;10(4):461–70. doi: 10.1096/fasebj.10.4.8647345.
plant arabinogalactan type II degradation

Accession ID: BioCyc:META_PWY-8006
  • 10.1016/s0021-9258(18)38151-1
  • 10.1128/mmbr.65.4.497-522.2001
  • 10.3389/fpls.2014.00198
 Knoch E, Dilokpimol A, Geshi N. Arabinogalactan proteins: focus on carbohydrate active enzymes. Front Plant Sci. 2014;5():198. PMID: 24966860; PMCID: PMC4052742.; de Vries RP, Visser J. Aspergillus enzymes involved in degradation of plant cell wall polysaccharides. Microbiol Mol Biol Rev. 2001 Dec;65(4):497–522, table of contents. PMID: 11729262; PMCID: PMC99039.; Nishitani K, Nevins DJ. Glucuronoxylan xylanohydrolase. A unique xylanase with the requirement for appendant glucuronosyl units. Journal of Biological Chemistry. 1991 Apr;266(10):6539–43. doi: 10.1016/s0021-9258(18)38151-1.
superpathway of CMP-sialic acids biosynthesis

Accession ID: BioCyc:META_PWY-6145
  • 10.1016/j.pep.2004.02.013
  • 10.1021/bi048606d
  • 10.1021/ja021309g
  • 10.1074/jbc.272.39.24319
  • 10.1093/glycob/cwt018
 Gurung MK, Ræder IL, Altermark B, Smalås AO. Characterization of the sialic acid synthase from Aliivibrio salmonicida suggests a novel pathway for bacterial synthesis of 7-O-acetylated sialic acids. Glycobiology. 2013 Jul;23(7):806–19. doi: 10.1093/glycob/cwt018. PMID: 23481098.; Murkin AS, Chou WK, Wakarchuk WW, Tanner ME. Identification and mechanism of a bacterial hydrolyzing UDP-N-acetylglucosamine 2-epimerase. Biochemistry. 2004 Nov 09;43(44):14290–8. doi: 10.1021/bi048606d. PMID: 15518580.; Blume A, Ghaderi D, Liebich V, Hinderlich S, Donner P, Reutter W, Lucka L. UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase, functionally expressed in and purified from Escherichia coli, yeast, and insect cells. Protein Expression and Purification. 2004 Jun;35(2):387–96. doi: 10.1016/j.pep.2004.02.013.; Chou WK, Hinderlich S, Reutter W, Tanner ME. Sialic acid biosynthesis: stereochemistry and mechanism of the reaction catalyzed by the mammalian UDP-N-acetylglucosamine 2-epimerase. J Am Chem Soc. 2003 Mar 05;125(9):2455–61. doi: 10.1021/ja021309g. PMID: 12603133.; Stäsche R, Hinderlich S, Weise C, Effertz K, Lucka L, Moormann P, Reutter W. A bifunctional enzyme catalyzes the first two steps in N-acetylneuraminic acid biosynthesis of rat liver. Molecular cloning and functional expression of UDP-N-acetyl-glucosamine 2-epimerase/N-acetylmannosamine kinase. J Biol Chem. 1997 Sep 26;272(39):24319–24. doi: 10.1074/jbc.272.39.24319. PMID: 9305888.
mannose degradation

Accession ID: BioCyc:YEAST_PWY3O-1743
  • 10.1093/genetics/86.4.727
 Lobo Z, Maitra PK. Genetics of yeast hexokinase. Genetics. 1977 Aug;86(4):727–44. PMID: 17248750; PMCID: PMC1213707.
GDP-mannose metabolism

Accession ID: BioCyc:SCO_MANGDPMET-PWY		 -
mannitol degradation II

Accession ID: BioCyc:META_PWY-3861		 -
GDP-mannose metabolism

Accession ID: BioCyc:PLASMO_MANGDPMET-PWY		 -
GDP-mannose metabolism

Accession ID: BioCyc:FLY_MANGDPMET-PWY		 -
1,5-anhydrofructose degradation

Accession ID: BioCyc:META_PWY-6992
  • 10.1128/aem.72.2.1248-1257.2006
 Ku¨hn A, Yu S, Giffhorn F. Catabolism of 1,5-Anhydro-d-Fructose inSinorhizobium morelenseS-30.7.5: Discovery, Characterization, and Overexpression of a New 1,5-Anhydro-d-Fructose Reductase and Its Application in Sugar Analysis and Rare Sugar Synthesis. Appl Environ Microbiol. 2006 Feb;72(2):1248–57. doi: 10.1128/aem.72.2.1248-1257.2006.
CMP-2-keto-3-deoxy-D-glycero-D-galacto-nononate biosynthesis

Accession ID: BioCyc:META_PWY-6140
  • 10.1007/s10719-006-6484-y
  • 10.1016/j.chembiol.2008.08.005
 Wang L, Lu Z, Allen KN, Mariano PS, Dunaway-Mariano D. Human Symbiont Bacteroides thetaiotaomicron Synthesizes 2-Keto-3-Deoxy-D-Glycero-D- Galacto-Nononic Acid (KDN). Chemistry & Biology. 2008 Sep;15(9):893–7. doi: 10.1016/j.chembiol.2008.08.005.; Inoue S, Kitajima K. KDN (deaminated neuraminic acid): dreamful past and exciting future of the newest member of the sialic acid family. Glycoconj J. 2006 Jul;23(5-6):277–90. doi: 10.1007/s10719-006-6484-y. PMID: 16897172.
galactose degradation I (Leloir pathway)

Accession ID: BioCyc:ECO_GALACTMETAB-PWY
  • 10.1073/pnas.0910586106
  • 10.1096/fasebj.10.4.8647345
  • 10.1371/journal.pone.0078360
 Barupal DK, Lee SJ, Karoly ED, Adhya S. Inactivation of Metabolic Genes Causes Short- and Long-Range dys-Regulation in Escherichia coli Metabolic Network. PLoS ONE. 2013 Dec 05;8(12):e78360. doi: 10.1371/journal.pone.0078360.; Lee SJ, Trostel A, Le P, Harinarayanan R, Fitzgerald PC, Adhya S. Cellular stress created by intermediary metabolite imbalances. Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19515–20. PMID: 19887636; PMCID: PMC2780772.; Frey PA. The Leloir pathway: a mechanistic imperative for three enzymes to change the stereochemical configuration of a single carbon in galactose. The FASEB Journal. 1996 Mar;10(4):461–70. doi: 10.1096/fasebj.10.4.8647345.
Metabolism and regulation

Accession ID: Plant Reactome:R-OAU-2744345		 -
Carbohydrate metabolism

Accession ID: Plant Reactome:R-OAU-2883407		 -
Carbohydrate metabolism

Accession ID: Plant Reactome:R-TAE-2883407		 -
Mannose catabolism

Accession ID: Plant Reactome:R-TAE-1119595		 -
Metabolism and regulation

Accession ID: Plant Reactome:R-MES-2744345		 -
GDP-mannose metabolism

Accession ID: Plant Reactome:R-MES-1119628		 -
Metabolism and regulation

Accession ID: Plant Reactome:R-TDI-2744345		 -
Metabolism and regulation

Accession ID: Plant Reactome:R-DRO-2744345		 -
Carbohydrate metabolism

Accession ID: Plant Reactome:R-OMI-2883407		 -